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Kosmische Evolutie

2019-01-21T15:01:11Z

Wvg1995: /* Examenvragen */

[[Categorie:Bachelor Chemie]]

==Vakinformatie==
Dit vak is een deel van minor verbreding. Het wordt gegeven door prof Waelkens Christoffel.

==Examenvragen==

===31 januari 2017 NM===

#Wat zijn supernovae en waarom zijn ze van nut?
#Leg de oerknal en haar argumenten uit
#Leg uit:
#*Bruine dwerg
#*Cepheïden
#*Interstellaire verroding

===24 januari 2017===

#Bespreek hoe men afstanden bepaalt in het heelal van dicht bij ons tot heel ver.
#Bespreek het ontstaan van de elementen
#Leg uit:
#*Effectieve temperatuur van sterren
#*Kosmologische achtergrondstraling
#*Bruine dwerg

===Oude vragen===

Wat zijn supernovae’s ? bespreek hun belang voor de (beschrijving van de )evolutie van het heelal

Geef de observationele argumenten voor de oerknalhypothese

Licht kort toe: interstellaire absorptie, effectieve temperatuur van de sterren, bruine dwerg

Bespreek hoe een afstandsladder kan worden opgesteld

Bespreek het zoeken naar exoplaneten. Wat hebben we hiertoe al gevonden? Welk beeld vinden we en hoe past dit in hetgeen we weten over ons eigen planetenstelsel

Licht kort toe: kosmologische achtergrondstraling, zwart gat, wet van wien, neutronenster, spectraal type van een ster, cepheiden, parallax, witte dwerg, absolute magnitude

Wat is een ster? Waarom en hoe evolueert ze?

Bespreek de chemie van het interstellair midden

Bespreek kort: rode reuzen, wet van Hubble, jeans massa

Geef 3 voorbeelden van inzichten of grootheden waarvoor afstandsmeting belangrijk is

Bespreek in ons zonnestelsel de gegevens die ons informatie verstrekken over het ontstaan

Bespreek kort: interstellaire verroding, roodverschuiving, turn-off point, eigenbeweging, hete jupiter, radiale snelheid

Bespreek de oorsprong van de abondanties van de elementen zoals ze voorkomen in het heelal

Bespreek evolutie van een ster adhv HR diagram

Een paradox: geen stof zonder sterren en geen sterren zonder stof. Leg uit en hoe tracht men deze paradox op te lossen

Bespreek de structuur van ons melkwegstelsel

Bespreek de evolutie van de Zon vanaf haar geboorte. Vanaf wanneer hebben we een probleem?

Hoe herkennen we Halo-sterren in de omgeving van de zon?

Wat is een planeet? Waarom zijn planeten belangrijk?

Is ons zonnestel bijzonder of normaal?

Bespreek de nucleosynthese in sterren.

Kosmische Evolutie

2019-01-21T15:00:57Z

Wvg1995: /* Oude vragen: */

[[Categorie:Bachelor Chemie]]

==Vakinformatie==
Dit vak is een deel van minor verbreding. Het wordt gegeven door prof Waelkens Christoffel.

==Examenvragen==

===31 januari 2017 NM===

#Wat zijn supernovae en waarom zijn ze van nut?
#Leg de oerknal en haar argumenten uit
#Leg uit:
#*Bruine dwerg
#*Cepheïden
#*Interstellaire verroding

===24 januari 2017===

#Bespreek hoe men afstanden bepaalt in het heelal van dicht bij ons tot heel ver.
#Bespreek het ontstaan van de elementen
#Leg uit:
#*Effectieve temperatuur van sterren
#*Kosmologische achtergrondstraling
#*Bruine dwerg

==='''Oude vragen'''===

Wat zijn supernovae’s ? bespreek hun belang voor de (beschrijving van de )evolutie van het heelal

Geef de observationele argumenten voor de oerknalhypothese

Licht kort toe: interstellaire absorptie, effectieve temperatuur van de sterren, bruine dwerg

Bespreek hoe een afstandsladder kan worden opgesteld

Bespreek het zoeken naar exoplaneten. Wat hebben we hiertoe al gevonden? Welk beeld vinden we en hoe past dit in hetgeen we weten over ons eigen planetenstelsel

Licht kort toe: kosmologische achtergrondstraling, zwart gat, wet van wien, neutronenster, spectraal type van een ster, cepheiden, parallax, witte dwerg, absolute magnitude

Wat is een ster? Waarom en hoe evolueert ze?

Bespreek de chemie van het interstellair midden

Bespreek kort: rode reuzen, wet van Hubble, jeans massa

Geef 3 voorbeelden van inzichten of grootheden waarvoor afstandsmeting belangrijk is

Bespreek in ons zonnestelsel de gegevens die ons informatie verstrekken over het ontstaan

Bespreek kort: interstellaire verroding, roodverschuiving, turn-off point, eigenbeweging, hete jupiter, radiale snelheid

Bespreek de oorsprong van de abondanties van de elementen zoals ze voorkomen in het heelal

Bespreek evolutie van een ster adhv HR diagram

Een paradox: geen stof zonder sterren en geen sterren zonder stof. Leg uit en hoe tracht men deze paradox op te lossen

Bespreek de structuur van ons melkwegstelsel

Bespreek de evolutie van de Zon vanaf haar geboorte. Vanaf wanneer hebben we een probleem?

Hoe herkennen we Halo-sterren in de omgeving van de zon?

Wat is een planeet? Waarom zijn planeten belangrijk?

Is ons zonnestel bijzonder of normaal?

Bespreek de nucleosynthese in sterren.

Kosmische Evolutie

2019-01-21T15:00:39Z

Wvg1995: /* Examenvragen */

[[Categorie:Bachelor Chemie]]

==Vakinformatie==
Dit vak is een deel van minor verbreding. Het wordt gegeven door prof Waelkens Christoffel.

==Examenvragen==

===31 januari 2017 NM===

#Wat zijn supernovae en waarom zijn ze van nut?
#Leg de oerknal en haar argumenten uit
#Leg uit:
#*Bruine dwerg
#*Cepheïden
#*Interstellaire verroding

===24 januari 2017===

#Bespreek hoe men afstanden bepaalt in het heelal van dicht bij ons tot heel ver.
#Bespreek het ontstaan van de elementen
#Leg uit:
#*Effectieve temperatuur van sterren
#*Kosmologische achtergrondstraling
#*Bruine dwerg

==='''Oude vragen:'''===

Wat zijn supernovae’s ? bespreek hun belang voor de (beschrijving van de )evolutie van het heelal

Geef de observationele argumenten voor de oerknalhypothese

Licht kort toe: interstellaire absorptie, effectieve temperatuur van de sterren, bruine dwerg

Bespreek hoe een afstandsladder kan worden opgesteld

Bespreek het zoeken naar exoplaneten. Wat hebben we hiertoe al gevonden? Welk beeld vinden we en hoe past dit in hetgeen we weten over ons eigen planetenstelsel

Licht kort toe: kosmologische achtergrondstraling, zwart gat, wet van wien, neutronenster, spectraal type van een ster, cepheiden, parallax, witte dwerg, absolute magnitude

Wat is een ster? Waarom en hoe evolueert ze?

Bespreek de chemie van het interstellair midden

Bespreek kort: rode reuzen, wet van Hubble, jeans massa

Geef 3 voorbeelden van inzichten of grootheden waarvoor afstandsmeting belangrijk is

Bespreek in ons zonnestelsel de gegevens die ons informatie verstrekken over het ontstaan

Bespreek kort: interstellaire verroding, roodverschuiving, turn-off point, eigenbeweging, hete jupiter, radiale snelheid

Bespreek de oorsprong van de abondanties van de elementen zoals ze voorkomen in het heelal

Bespreek evolutie van een ster adhv HR diagram

Een paradox: geen stof zonder sterren en geen sterren zonder stof. Leg uit en hoe tracht men deze paradox op te lossen

Bespreek de structuur van ons melkwegstelsel

Bespreek de evolutie van de Zon vanaf haar geboorte. Vanaf wanneer hebben we een probleem?

Hoe herkennen we Halo-sterren in de omgeving van de zon?

Wat is een planeet? Waarom zijn planeten belangrijk?

Is ons zonnestel bijzonder of normaal?

Bespreek de nucleosynthese in sterren.

Kosmische Evolutie

2019-01-21T15:00:03Z

Wvg1995: /* Examenvragen */

[[Categorie:Bachelor Chemie]]

==Vakinformatie==
Dit vak is een deel van minor verbreding. Het wordt gegeven door prof Waelkens Christoffel.

==Examenvragen==

===31 januari 2017 NM===

#Wat zijn supernovae en waarom zijn ze van nut?
#Leg de oerknal en haar argumenten uit
#Leg uit:
#*Bruine dwerg
#*Cepheïden
#*Interstellaire verroding

===24 januari 2017===

#Bespreek hoe men afstanden bepaalt in het heelal van dicht bij ons tot heel ver.
#Bespreek het ontstaan van de elementen
#Leg uit:
#*Effectieve temperatuur van sterren
#*Kosmologische achtergrondstraling
#*Bruine dwerg

'''Oude vragen:'''

Wat zijn supernovae’s ? bespreek hun belang voor de (beschrijving van de )evolutie van het heelal

Geef de observationele argumenten voor de oerknalhypothese

Licht kort toe: interstellaire absorptie, effectieve temperatuur van de sterren, bruine dwerg

Bespreek hoe een afstandsladder kan worden opgesteld

Bespreek het zoeken naar exoplaneten. Wat hebben we hiertoe al gevonden? Welk beeld vinden we en hoe past dit in hetgeen we weten over ons eigen planetenstelsel

Licht kort toe: kosmologische achtergrondstraling, zwart gat, wet van wien, neutronenster, spectraal type van een ster, cepheiden, parallax, witte dwerg, absolute magnitude

Wat is een ster? Waarom en hoe evolueert ze?

Bespreek de chemie van het interstellair midden

Bespreek kort: rode reuzen, wet van Hubble, jeans massa

Geef 3 voorbeelden van inzichten of grootheden waarvoor afstandsmeting belangrijk is

Bespreek in ons zonnestelsel de gegevens die ons informatie verstrekken over het ontstaan

Bespreek kort: interstellaire verroding, roodverschuiving, turn-off point, eigenbeweging, hete jupiter, radiale snelheid

Bespreek de oorsprong van de abondanties van de elementen zoals ze voorkomen in het heelal

Bespreek evolutie van een ster adhv HR diagram

Een paradox: geen stof zonder sterren en geen sterren zonder stof. Leg uit en hoe tracht men deze paradox op te lossen

Bespreek de structuur van ons melkwegstelsel

Bespreek de evolutie van de Zon vanaf haar geboorte. Vanaf wanneer hebben we een probleem?

Hoe herkennen we Halo-sterren in de omgeving van de zon?

Wat is een planeet? Waarom zijn planeten belangrijk?

Is ons zonnestel bijzonder of normaal?

Bespreek de nucleosynthese in sterren.

Kosmische Evolutie

2019-01-21T14:59:48Z

Wvg1995: /* Examenvragen */

[[Categorie:Bachelor Chemie]]

==Vakinformatie==
Dit vak is een deel van minor verbreding. Het wordt gegeven door prof Waelkens Christoffel.

==Examenvragen==

===31 januari 2017 NM===

#Wat zijn supernovae en waarom zijn ze van nut?
#Leg de oerknal en haar argumenten uit
#Leg uit:
#*Bruine dwerg
#*Cepheïden
#*Interstellaire verroding

===24 januari 2017===

#Bespreek hoe men afstanden bepaalt in het heelal van dicht bij ons tot heel ver.
#Bespreek het ontstaan van de elementen
#Leg uit:
#*Effectieve temperatuur van sterren
#*Kosmologische achtergrondstraling
#*Bruine dwerg

Oude vragen:
Wat zijn supernovae’s ? bespreek hun belang voor de (beschrijving van de )evolutie van het heelal

Geef de observationele argumenten voor de oerknalhypothese

Licht kort toe: interstellaire absorptie, effectieve temperatuur van de sterren, bruine dwerg

Bespreek hoe een afstandsladder kan worden opgesteld

Bespreek het zoeken naar exoplaneten. Wat hebben we hiertoe al gevonden? Welk beeld vinden we en hoe past dit in hetgeen we weten over ons eigen planetenstelsel

Licht kort toe: kosmologische achtergrondstraling, zwart gat, wet van wien, neutronenster, spectraal type van een ster, cepheiden, parallax, witte dwerg, absolute magnitude

Wat is een ster? Waarom en hoe evolueert ze?

Bespreek de chemie van het interstellair midden

Bespreek kort: rode reuzen, wet van Hubble, jeans massa

Geef 3 voorbeelden van inzichten of grootheden waarvoor afstandsmeting belangrijk is

Bespreek in ons zonnestelsel de gegevens die ons informatie verstrekken over het ontstaan

Bespreek kort: interstellaire verroding, roodverschuiving, turn-off point, eigenbeweging, hete jupiter, radiale snelheid

Bespreek de oorsprong van de abondanties van de elementen zoals ze voorkomen in het heelal

Bespreek evolutie van een ster adhv HR diagram

Een paradox: geen stof zonder sterren en geen sterren zonder stof. Leg uit en hoe tracht men deze paradox op te lossen

Bespreek de structuur van ons melkwegstelsel

Bespreek de evolutie van de Zon vanaf haar geboorte. Vanaf wanneer hebben we een probleem?

Hoe herkennen we Halo-sterren in de omgeving van de zon?

Wat is een planeet? Waarom zijn planeten belangrijk?

Is ons zonnestel bijzonder of normaal?

Bespreek de nucleosynthese in sterren.

Chemistry at nanometer scale

2018-05-20T09:26:12Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
=Vakinformatie=
Chemistry at nanometer scale
==Examenvragen==

'''14 June 2016 8:00'''
(of course I only notice they're the same questions as 15th june 2015 after I typed all this)

1. Give the optimal way to create:

a) A thiol monolayer on a graphene substrate (extra question: what does this layer look like?)
b) A thiol layer on a gold substrate with a certain alkyn chain length but at five locations at positions you can control with a diameter of a couple tens of nanometers, place thiols with a longer chain
c) A thiol layer on a gold substrate in a regular band structure, bands have a width of several micrometer (extra questions: what is PDMS? what is the ink composed of?)
d) A thiol layer on a gold substrate with the thiol in an array of regular sized dots (about 3 nm in diameter) spaced 1.5 - 2 nm apart
e) A thiol "drawing" on gold substrate, the drawing lines have a width of about 70 nm
f) Gold nanoparticles (d = 10 nm) on a silicon substrate in a regular but noncrystalline array, spaced 60 nm apart
g) What probing method would you use to visualise d)? Can you use the same method to visualise f)? (extra questions: how does feedback work in AFM? what is the resonant frequency of the tip?)

2. Correct/wrong and why?

a) It does not matter what type of amphiphiles you add to a solution (positively charged, negatively charged or neutral), the surface tension decreases at increasing concentration
b) Gold nanoparticles have the major drawback of having a much smaller quantum yield than semiconducting nanoparticles for fluorescence spectroscopy purposes

'''13 June 2016 10:00'''

Same questions as 05 June 2015 10:00

'''22 June 2015'''

1. Dendirmers PAMAM(chap 5) take me a lot of time to find where it is...

(1) Na+ adsorption why?
(2) structure
(3) how to synthesis?
(4) viscosity change with higher generation
(5) difference between dendrimer and micelle is dendrimer needs lower concentration, right?

2.copolymer, epitaxial SA on Si(chap 15) only two slides but you need to know the whole process and the mechanism. also about AFM i think so go over chap 19 AFM!

(1) how to make chemical contrast?
(2) how copolymer ordered on that?
(3) how to characterise this pattern?
3.LbL pH sensor just like exercise 1.

'''23 June 2015'''

1)

a. how to change hidrophilicity/phobicity of a surface
b. how to tune it (not completely philic or phobic but also with different degrees)
c. how to detect polarity of surface macro and nanoscopically

2) n-siNW sensor for positively charged protein: how it works

a. reaction with PEG
b. how to characterize it
c. something else I dont remember

3) LbL of iron and gold nanoparticles linked by covalently-bonded crosslink

a) how to separate the different np
b) how to synthetize np in water.
c) he provides you the protocol for the synthesis of iron oxide NPs with different agents. then they are mixed with APTMS and someother molecule with COOH.
write what happens chemically and draw the composition of NPs
d) red shift in absorption of the nps: what does it mean?

4)(true false) mie theory explains fluorescence of semiconductor nps at higher energies.

'''15th June 2015'''

1. Many small questions about patterning, monolayers, etc, almost everything with alkyl thiols.

a) How would you make a monolayer in graphene?
b) How would you make a monolayer in gold and then substitute some islands of nm size with another alkyl thiol of longer tail?
c) How would you make stripes of alkyl thiol in gold that are micrometer sized?
d) How would you create small islands of aklyl thiols that are 2-3 nm sized and separated also by very few nanometers?
e) How would you make an irregular pattern (like a drawing) of alkyl thiols in gold with precision?
f) How would you deposit gold nanoparticles in Si forming small island in a regular but not crystalline pattern that are separated by 60 nm or so?
g) Which techniques would you use to measure that pattern in Si and the one of the small islands in gold?

2. True/False

a) Something like: the surface energy is independent of the amphiphile you use: positively charged, negatively charged or neutral. (it was something a little bit different but more or less)
b) GNPs are not really used as biolabels because they have low quantum yield in comparison to QDs of the same size.

'''19th June 2015'''

1. Diagram of a DNA functionalised gold NP designed to detect Ascorbic acid. An explanation of how the device work is provided. Basically It fluoresces after the DNA gets cleaved because of a radical produced by the ascorbic acid.

a) describe how one can prepare gold nanoparticles
b) describe how one can functionalise the NPs with the DNA strands
c) which spectroscopic technique would you use to determine the concentration of gold NP
d) What do you think is the reason why the sensitivty is 100x better with the Gold NP than in a device without gold NPs?

2. True or false and why: Keeping a low precursor concentration when synthesising gold NPs results in a broad spectrum of the fluorescence curve

3. He gives you a diagram of a molecule with three fused aromaticc rings, a number of C=O bonds, some N atoms and an alkyl chain. He says some researchers showed this can be useful for dispersing SWCNTS.

a) why is it hard to disperse SWCNTS?
b) Describe a possible mechanism of how this molecule achieves dispersion

'''5 June 2015 10:00'''
For a given application it is necessary to make a silicon wafer, with its natural oxide layer, hypdrophobic. Looking into the scientific literature, I found the following recipe:
"After dissolving trichlorooctylsilane molecule in a new glass beaker with ethanol, at rather low concentrations, a gold substrate is dipped into the solution for a few seconds, followed by a rinsing step with water.'"'
Analyse this statement, and discuss in terms of chemistry, indicating what's correct/wrong/nonsense and why.
Comment on this statement (correct/wrong and why?):
"Metal nanoparticle synthesis is governed by kinetics, rather than thermodynamics."
On top of this multilayered substrate, shown below (so with the chromium top layers), a photoresist polymer is coated. The sample is irradiated through a square-shaped mask, and the irradiated area (so having the shape of a square) is washed away. Then the following manipulations were done: gold is deposited via electrodeposition on top of the substrate; a chromium layer is deposited; then the sample is subsequently treated with 1) acetone, 2) nitric acid (dissolves the silver layer), 3) sonicated in a hexadecanethiol solution, though not necessarily in the order indicated. Figure with this top-to-down structure: chromium-silver-chromium-Si/SiO2. Draw the object formed and describe its chemical nature (bulk and surface)
What is the role of acetone, an organic solvent sonication in hexadecanethiol solution in ethanol. Define the order of the different steps in the treatment
Describe two methods you would use to evaluate the degree of polarity of surfaces:
a macroscopic technique and
a technique which operates at the nano to micro scale

A mixture of oppositely charged spheres (diameter not defined) forms a highly ordered phase (see figure below). The red particles are negatively charged and the green ones positively charged.
Discuss the different aspects of the energetics involved in this self-assembly process (in terms of Gibbs free energy)
Alt

+/- Charged spheres assembled lattice
In another experiment, rod like objects of identical length, carrying no charge, and with only minimal interrod interactions, were found to self-assemble. Draw the outcome of the self-assembly process. Explain in terms of the energetics of the process.
[edit]Old NanoForum questions
These questions are copied from the old nano forum so the format might not be ideal.

'''Unknown date'''

1. How to make a gold surface hydrophobic or hydrophylic? How to switch the hydrophobicity / hydrophylicity of the gold surface by electrochemical stimuli?

2. Comment (right/wrong and why)

a ) The most important motivation for the development of field-effect-transistors and
solar cells based upon organic molecules isthe improved efficiency compared to inorganic semiconductor materials.

What are the requirements in order to use low molecular weight organic molecules as active components in organic field-effect-transistors?

b) The formation of 'objects' with a well-defined size and shape on the basis of selfassembly is an impossible task.
c) A continuous flux of energy into the 'system' is bad for the formation of ordered
patterns.

d) The Mie-theory explains why the fluorescence of nanometer-sized semiconductor
particles is observed at lower energy upon increasing the size of the particles.

3. How does the surface tension of an aquous solution evolve if the concentration of the solute increases?

4. Mixing the calixarene (left) and the barbiturate (right) in the appropriate stoichiometric conditions leads to the formation of a complex (see picture).

a) What's the driving force for the formation of these complexes?
b) What structure will be formed: the (P)-enantiomer, the (M)-enantiomer or both?
Explain by using an energy diagram.

c) What will happen if one adds to the existing solution a new barbiturate with a chiral
side chain?

d) These complexes have also been visualised on graphite by a scanning probe
microscopy method. Which technique has been used and why? Give a short description how this technique works.

5. How to make an ultrasmall pH sensorbased upon conductivity measurements. How does it work?

'''Unknown date'''

1. Nanowire

a) A silicion nanowire is made using 20nm nanocluster of gold. Explain which technique is used and how it works (really know how it works and what it needs and different changes in the process).
the nanowire is mixed into a solution of 1%functionalizing thing that I can’t remember and ethanol, write down the product.

c) You want to use the nanowire as a sensor for viruses in a ‘device’, Explain how to make this device? (explain and really know what parts are needed and how it works, but not how it is produced)
d) There are many long 1 micron wires and you want to order them (picture similar to logs in a pond). Explain how you can do this using a bottom-up technique. (Basically what technique???)
e) How can you image the ‘device’ that you explained on c) Which technique is the best for this and how does it work? Why are the other techniques worse??

2. True or false:

a) Sometimes a constant energy flux is needed to make ordered patterns.
Adding surfactants to water makes the surface tension higher

c) Can’t remember the other ones!!! But you get the style basically write down why it is write/wrong and really know and explain why.

3. “self-healing” There is a thermoreversible polymer that when you cut or break it is only necessary to bring these parts together and the parts reattach themselves. This is done at room temperature. (Wording in this question is key to recognizing what we are working with in this question, since I am an oversimplifying person I do not remember all the exact wording: Basically it dealt with supramolecular polymers)

a) What is the ‘principle’ behind this?
What interactions are behind this and how can we tune them? (Really know which ones and how we can lower/increase them)
c) Mention a similar material that has becomes useful because of it temperature dependance properties that are not common for regular polymers (basically difference between supramolecular polymers and regular ones)

'''June 14th 2014, afternoon'''

1.

You get a picture of a new photovoltaic cell. It is made from CdSe nanorods and organic semiconductor. HOMO and LUMO for both materials are given. and also a graph with the absorbency for each wavelength of the photovoltaic cell for CdSe quantum dots, short nanorods, and a bit longer nano rods.

a) What are the function of the materials and how does this device work
How do you change the bandgap of the CdSe nanorods
c) why is the efficiency of the device bigger for nanorods then for quantum dots
d) How do you make nanorods in stead of quantum dots
e) How would you study the structure of this device

2.

a) How can you make a sensor for for instance negatively charged proteins by using nanowires? ?
c) What are the benefits of this kind of device.

3.

The structure of a molecule to that could dispense CNTs in organic solvents was given, it contained a aromatic group and an alkyl chain.

a) Why is it not so easy to dispense CNTs in a solven
b) How does the molecule dispence the CNT
c) What molecular interactions are involved in this mechanism

4.

True are false questions

a) Is the Mie therory valid for semiconductor nanoparticles with a diameter of 10 nm
b and c) can't remember
d) are all molecular interactions for self assembly where entropic forces are involved only possible in water?
5th: a question about the layer by layer method, can't remember it exactly

'''Unknown date'''
answers are not all exactly correct, but gives you a thinking in the right way

1. detection of adsorbic acid in for instance fruit juice you get a picture and I'll try to give an explanation. Sensing goes via functionalized nano particle. A gold nanoparticle has 4 DNAenzymes, with a fluor atom in the middle of enzyme (DNAenzyme: SH-ATTC...G-fluor-AGGGTCC....) and there is a DNA strand with complementary nucleotides of the dna enzyme, and it has a loop (on the place were the fluor is) with Ca2+ in the loop. if this sensor detect AA, then you have left the gold nano-particles, still with some dnaenzyme (just only a little part), 4 fluor atoms still bounded on the other half of the enzyme, en 4 dnastrands with Ca2+. The intensity of the fluor is enhanced.

a) how is gold nano particle, not yet functionalized with DNA, prepared knowing that the experiments and synthesis carried out in aqueous solution
--> Chapter 16, metal nanoparticles in aqueous solution, it is with the citrate (that gives also stability)

detection is based on fluorescence; why does the intensity of the fluorescence increases after adsorption of AA?
--> something with the gold: if the flour is too close to the gold, the gold inhibits the fluorescence

c) how are the oglionucleotides bounded to the gold nano particle? explain
--> receptor ligand, (receptor is the thiol) and this binding is stronger than the one of the citrate

d) wich spectroscopy? eg: UV/Vis
e) what is the (chemical) role of Au particle here?
--> catalysation of breaking the dna enzyme and the dna

2.goldnanoparticles are grown like the classical nucleation model, have broad spectrum plasman resonance. --> explain everything of SPR, explain everything of (de)focussing, so the growth procedure of a nano particle, and finally: you have different nanoparticles with diff sizes and all together they result in a broad SPR

3. picture of molecule with aromatic part en alkyl part this molecule helps to dispersce SWCNT a) give a posible mechanism (draw) it was something with H-bonding of the N en =O from the aromatic part wat are the reactions of the alkyl and the aromatic part (alkyl will disolve in the organic solution..)

4. a rod goes to an ordered structure, explain the energetics something with delta G = detla H - T*delta S and look to chapter LC, similar to Onsager hard-rod model)

5. how would you make a drawing of 70 nm width form thiols on gold substrate en how do you change the witdt? - dip pen nano lithography

'''Unknown date'''
Similar like previous years:

- How do you make a n-type siliconwire from gold particles (VLS) - It is covered with some alkyls, draw the chemistry and how would you do that (SAM) - It is used as protein sensor, how does it work? - How would we measure this? AFM - How can we prevent non-specific interactions with proteins?

True/false:

20nm gold particles are chosed for their better quantum yield then semicondutors when used as fluorescence sensor --> wrong, no fluorescence, particle is too large

A wire like above is better for sensing lower concentration proteins when it has a larger diameter. --> wrong i think, not sure. Smaller diameter = lower conduction --> bigger effect from proteins, more sensitive.

LBL question like in excercise session 1, in fact it is the exact same question but he uses polymer X and polymer Y and he reversed the question, asking when polymer X would have the thinnest layer. You have to make a table with = ~ > < in.

He does go pretty deep into it with extra questions during the oral examination, for instance he asked me how many times the AFM tip will tap per second in tapping mode... (had no idea)

'''Unknown date'''

Right or Wrong
Discuss the chemistry of a silane agent ( trichlorooctylsilane) in a ethanol solution, when a gold substrate is dipped into the solution. Or something like that.

So the silane hydrolises and forms a SAM on the surface, but since you're using gold and gold forms no oxide , this doesn't work. So the answer was wrong

Right or wrong
Nanoparticle formation is driven by kinetics instead of thermodynamics

Question about soft lithography,
Substrate is given and drawn, then photo-resist is spun unto it and a square is etched out, gold is deposited and then chromium layer is deposited,after this acetone is used, HNO3 and then some surface layer draw the new substrate, so after al these steps.add what is what so surface and bulk materials than he asks why you use acetone ( remove Photo-resist) HNO3 ( oxidize chromium) and then the surface layer .

give two methods for evaluating polarity of a surface on macro scale and on nano scale
I said AFM for nano ,the AFM with the chemically modified tip don't remember the name and contact angle measurements for the macro

last question was a picture of + and - charged ballz and then they self assemble and you had to sum up all the energetics involved.

So the questions are quit easy when you have your book, but as stated above, he does go into a lot of detail when asking smaller questions.

'''Unknown date'''

1. Contained several part. All were related to forming patterns with Alkyl thiols on substrate except for one. Need to explain the approach that will be taken to form the following patterns and motivation for the same

a. Monolayer on top of gold substrate b. First, Monolayer on top of gold substrate. After this, the height of alkyl thiols have to be changed at certain islands (diameter ~ 10 nm) c. Stripes of alkyl thiols (dimensions in um) d. Alkyl thiol islands at certain positions of gold (dimensions in nm) e. A drawing made of alkyl-thiol f. Pattern made of naked Au clusters on top of Si g. How do you visualize the structures made in d? Provide the Best method

2. True/False

a. +ve/-ve amphiphiles reduce the surface tension. Neutral ones dont reduce it. b. Gold nanoparticles have less quantum yield than semiconducting ones and so not used for fluorescent labeling of cells.

'''27/06 exam'''
1. from paper: hybrid polymer-CdSe solar cells.. there are pics of the device and efficiency of solar cells vs length of CdSe nanorods (positive relation)

a. explain how it works and state the function of each in the device (there are Al, PEDOT:PSS, polymer-CdSe blend, ITO, Substrate)

b. how to play with bandgap?

c. why longer nanorods is more efficient?

d. how you make nanorods instead of nanodot?

e. how you measure the topography and composition?

2. a. explain nanowire-based protein detection

b. draw the output

c. what is the advantage?

3. a. why CNT can't be dispersed?

b. what is ur suggested solution?

c. (pic is shown consist of benzene) why this molecules can disperse the CNT?

4. T/F

a. mie theory explains flouroscense of CdSe at 10nm

b. entropy-driven self assembly can only happen in water

'''Unknown date'''

1) A solar cell built from an organic donor and a CdSe nanorod blend acceptor: -explain the working principle -why nanorods? do they have a better efficiency than quantumdots? (shape is better, rods are electronic highways (that's what he said to me )) -how would you examine the structure at nm scale (i just explained stm and it seemed fine for him)

2) true/false -a solution of CdSe nanoparticles has a broad absorption spectrum. when we evaporate the solute, the remaining nanoparticles must have a broad spectrum too, as a result of ostwald ripening. (ostwald has nothing to do here, the particles are allready stable and won't grow) -the insolubility of benzene (and aromats in general) is an enthalpic effect

3)-You want to make a uniform monolayer of an alkyl thiol on gold, how? -> he asked me to give the reaction of the S on AU releasing H2 -You want to make specific islands with thyiols that have a longer alkyl chain -You want to make "trench-shaped" structures of 5µm width -> pdms stamping can go to 50nm -> he asked the chemical structure of PDMS and how the thiols bind to it and how long you would have to press (wtf?)

4) Something about layer by layer deposition and linear charge distrubution vs surface charge distribution. We had to make a table and compare LCD and SCD in several dippings.

'''20 June 2014'''

Q#1: Detection of adsorbic acid in for instance fruit juice you get a picture and I'll try to give an explanation. Sensing goes via functionalized nano particle. A gold nanoparticle has 4 DNAenzymes, with a fluor atom in the middle of enzyme (DNAenzyme: SH-ATTC...G-fluor-AGGGTCC....) and there is a DNA strand with complementary nucleotides of the dna enzyme, and it has a loop (on the place were the fluor is) with Ca2+ in the loop. if this sensor detect AA, then you have left the gold nano-particles, still with some dnaenzyme (just only a little part), 4 fluor atoms still bounded on the other half of the enzyme, en 4 dnastrands with Ca2+. The intensity of the fluor is enhanced.

a) How is gold nano particle, not yet functionalized with DNA, prepared knowing that the experiments and synthesis carried out in aqueous solution. b) Detection is based on fluorescence; why does the intensity of the fluorescence increases after adsorption of AA?. c) How are the oglionucleotides bounded to the gold nano particle? explain. d) Which spectroscopy technique can you use to detect gold nanoparticles concentration in solution?. e) Why does using gold nanoparticles in solution gives you 2X better results that using ordinary techniques... Explain the methods and comparisons for both techniqes in detail.

Q#2 Gold nanoparticles are grown like the classical nucleation model, have broad spectrum plasmon resonance. a) What is the effect on emission spectrum if low precursor concentration in used to make gold nanoparticles ?

Q#3 Picture of molecule with aromatic part and alkyl part this molecule helps to dispersce SWCNT. a) Give a possible mechanism for this molecule interation with SWCNT(draw). Also explain the details about this molecule b) What are the reactions of the alkyl and the aromatic part? c) Why is it difficult to separate these SWCNTs ?

'''June 23rd 2014 8:00'''

Q#1 There is a picture of organic molecule given that self-assembles into conductive rod. It has N atom in the middle with 2 extra elextrons and 3 single bonds with 3 benzene rings and then hydro-carbon chains. On second picture there are these rods aligned between two electrodes perpendicular to their surface |----| a) what drives that to assemble b) what makes it align between electrodes

Q#2 There is picture of lamellar and pillars structure. In the middle of one of the materials there are CdSe nano-particles a) what compound and how can form these structures b) assume the surface of structure is perfectly flat, how can you visualize what material is where on nanoscale c) particles start to aggregate, haw will it affect florescence spectra (with and shift)

Q#3 There is a picture of rods that are positively charged. When concentration increases they form LC phase. What is the driving force?

Q#4 There is picture from the paper showing a new way of forming a monocrystal. First there is an amorphous phase formed on a surface, then there are crystal domains that with help of this surface merge into one crystal that then continue to grow. What is the difference between that and classical crystallisation theory?

b)

'''June 24th 2014 10.00'''
Q#1

How do you make a gold surface hydrophilic/hydrophobic?
How do you tune the hydrophobicity (he doesnt want the switching mechanisms but a 'continuous' tuning by adding a certain ratio of different molecules to the SAM)
How would you detect the macroscopic hydrophobicity? Explain the method.
The hydrophobicity varies on the micrometer scale. What method do you use to measure local hydrophobicity?

Q#2

An n-type SiNW is used for the detection of a positively charged protein

Describe the operation (not the fabrication) of this device.
Right/Wrong: The sensitivity of this device increases when the SiNW diameter increases
Describe the characterization method (full AFM description)

Q#3

Researchers have made an aggregate of gold NP and ironoxide NP, so-called NP hyperclusters. This method is proposed as an alternative to the electrostatic polymer LBL method to create alternating layers. The researchers added linker molecules to stabilize the aggregate and to give the film a more homogeneous thickness.

Give a method to separate gold and ironoxide NP in solution (you can give a variety of methods but he says magnetism is the simplest)
Describe a protocol to make a solution of gold NP in water (straight from the course)
Ironoxide NP are made using an inhouse method and functionalized using octylamine. The NP themselves are formed using FeCl3 and PEG (polyethyleneglycol) as reductans and solvent. Afterwards the functionalization is modified by substituting APTMS (aminopropyl-trimethoxysilane) using trace amounts of CH3COOH. Write down the chemistry and give a cartoon diagram of the result.

Q#4

Right/wrong and explain: Mie theory describes the significant shift of plasmon frequency (540-->650nm) upon aggregation.

Chemistry at nanometer scale

2018-05-20T09:25:59Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
=Vakinformatie=
Chemistry at nanometer scale
==Examenvragen==

'''14 June 2016 8:00'''
(of course I only notice they're the same questions as 15th june 2015 after I typed all this)

1. Give the optimal way to create:

a) A thiol monolayer on a graphene substrate (extra question: what does this layer look like?)
b) A thiol layer on a gold substrate with a certain alkyn chain length but at five locations at positions you can control with a diameter of a couple tens of nanometers, place thiols with a longer chain
c) A thiol layer on a gold substrate in a regular band structure, bands have a width of several micrometer (extra questions: what is PDMS? what is the ink composed of?)
d) A thiol layer on a gold substrate with the thiol in an array of regular sized dots (about 3 nm in diameter) spaced 1.5 - 2 nm apart
e) A thiol "drawing" on gold substrate, the drawing lines have a width of about 70 nm
f) Gold nanoparticles (d = 10 nm) on a silicon substrate in a regular but noncrystalline array, spaced 60 nm apart
g) What probing method would you use to visualise d)? Can you use the same method to visualise f)? (extra questions: how does feedback work in AFM? what is the resonant frequency of the tip?)

2. Correct/wrong and why?

a) It does not matter what type of amphiphiles you add to a solution (positively charged, negatively charged or neutral), the surface tension decreases at increasing concentration
b) Gold nanoparticles have the major drawback of having a much smaller quantum yield than semiconducting nanoparticles for fluorescence spectroscopy purposes

'''13 June 2016 10:00'''
Same questions as 05 June 2015 10:00

'''22 June 2015'''

1. Dendirmers PAMAM(chap 5) take me a lot of time to find where it is...

(1) Na+ adsorption why?
(2) structure
(3) how to synthesis?
(4) viscosity change with higher generation
(5) difference between dendrimer and micelle is dendrimer needs lower concentration, right?

2.copolymer, epitaxial SA on Si(chap 15) only two slides but you need to know the whole process and the mechanism. also about AFM i think so go over chap 19 AFM!

(1) how to make chemical contrast?
(2) how copolymer ordered on that?
(3) how to characterise this pattern?
3.LbL pH sensor just like exercise 1.

'''23 June 2015'''

1)

a. how to change hidrophilicity/phobicity of a surface
b. how to tune it (not completely philic or phobic but also with different degrees)
c. how to detect polarity of surface macro and nanoscopically

2) n-siNW sensor for positively charged protein: how it works

a. reaction with PEG
b. how to characterize it
c. something else I dont remember

3) LbL of iron and gold nanoparticles linked by covalently-bonded crosslink

a) how to separate the different np
b) how to synthetize np in water.
c) he provides you the protocol for the synthesis of iron oxide NPs with different agents. then they are mixed with APTMS and someother molecule with COOH.
write what happens chemically and draw the composition of NPs
d) red shift in absorption of the nps: what does it mean?

4)(true false) mie theory explains fluorescence of semiconductor nps at higher energies.

'''15th June 2015'''

1. Many small questions about patterning, monolayers, etc, almost everything with alkyl thiols.

a) How would you make a monolayer in graphene?
b) How would you make a monolayer in gold and then substitute some islands of nm size with another alkyl thiol of longer tail?
c) How would you make stripes of alkyl thiol in gold that are micrometer sized?
d) How would you create small islands of aklyl thiols that are 2-3 nm sized and separated also by very few nanometers?
e) How would you make an irregular pattern (like a drawing) of alkyl thiols in gold with precision?
f) How would you deposit gold nanoparticles in Si forming small island in a regular but not crystalline pattern that are separated by 60 nm or so?
g) Which techniques would you use to measure that pattern in Si and the one of the small islands in gold?

2. True/False

a) Something like: the surface energy is independent of the amphiphile you use: positively charged, negatively charged or neutral. (it was something a little bit different but more or less)
b) GNPs are not really used as biolabels because they have low quantum yield in comparison to QDs of the same size.

'''19th June 2015'''

1. Diagram of a DNA functionalised gold NP designed to detect Ascorbic acid. An explanation of how the device work is provided. Basically It fluoresces after the DNA gets cleaved because of a radical produced by the ascorbic acid.

a) describe how one can prepare gold nanoparticles
b) describe how one can functionalise the NPs with the DNA strands
c) which spectroscopic technique would you use to determine the concentration of gold NP
d) What do you think is the reason why the sensitivty is 100x better with the Gold NP than in a device without gold NPs?

2. True or false and why: Keeping a low precursor concentration when synthesising gold NPs results in a broad spectrum of the fluorescence curve

3. He gives you a diagram of a molecule with three fused aromaticc rings, a number of C=O bonds, some N atoms and an alkyl chain. He says some researchers showed this can be useful for dispersing SWCNTS.

a) why is it hard to disperse SWCNTS?
b) Describe a possible mechanism of how this molecule achieves dispersion

'''5 June 2015 10:00'''
For a given application it is necessary to make a silicon wafer, with its natural oxide layer, hypdrophobic. Looking into the scientific literature, I found the following recipe:
"After dissolving trichlorooctylsilane molecule in a new glass beaker with ethanol, at rather low concentrations, a gold substrate is dipped into the solution for a few seconds, followed by a rinsing step with water.'"'
Analyse this statement, and discuss in terms of chemistry, indicating what's correct/wrong/nonsense and why.
Comment on this statement (correct/wrong and why?):
"Metal nanoparticle synthesis is governed by kinetics, rather than thermodynamics."
On top of this multilayered substrate, shown below (so with the chromium top layers), a photoresist polymer is coated. The sample is irradiated through a square-shaped mask, and the irradiated area (so having the shape of a square) is washed away. Then the following manipulations were done: gold is deposited via electrodeposition on top of the substrate; a chromium layer is deposited; then the sample is subsequently treated with 1) acetone, 2) nitric acid (dissolves the silver layer), 3) sonicated in a hexadecanethiol solution, though not necessarily in the order indicated. Figure with this top-to-down structure: chromium-silver-chromium-Si/SiO2. Draw the object formed and describe its chemical nature (bulk and surface)
What is the role of acetone, an organic solvent sonication in hexadecanethiol solution in ethanol. Define the order of the different steps in the treatment
Describe two methods you would use to evaluate the degree of polarity of surfaces:
a macroscopic technique and
a technique which operates at the nano to micro scale

A mixture of oppositely charged spheres (diameter not defined) forms a highly ordered phase (see figure below). The red particles are negatively charged and the green ones positively charged.
Discuss the different aspects of the energetics involved in this self-assembly process (in terms of Gibbs free energy)
Alt

+/- Charged spheres assembled lattice
In another experiment, rod like objects of identical length, carrying no charge, and with only minimal interrod interactions, were found to self-assemble. Draw the outcome of the self-assembly process. Explain in terms of the energetics of the process.
[edit]Old NanoForum questions
These questions are copied from the old nano forum so the format might not be ideal.

'''Unknown date'''

1. How to make a gold surface hydrophobic or hydrophylic? How to switch the hydrophobicity / hydrophylicity of the gold surface by electrochemical stimuli?

2. Comment (right/wrong and why)

a ) The most important motivation for the development of field-effect-transistors and
solar cells based upon organic molecules isthe improved efficiency compared to inorganic semiconductor materials.

What are the requirements in order to use low molecular weight organic molecules as active components in organic field-effect-transistors?

b) The formation of 'objects' with a well-defined size and shape on the basis of selfassembly is an impossible task.
c) A continuous flux of energy into the 'system' is bad for the formation of ordered
patterns.

d) The Mie-theory explains why the fluorescence of nanometer-sized semiconductor
particles is observed at lower energy upon increasing the size of the particles.

3. How does the surface tension of an aquous solution evolve if the concentration of the solute increases?

4. Mixing the calixarene (left) and the barbiturate (right) in the appropriate stoichiometric conditions leads to the formation of a complex (see picture).

a) What's the driving force for the formation of these complexes?
b) What structure will be formed: the (P)-enantiomer, the (M)-enantiomer or both?
Explain by using an energy diagram.

c) What will happen if one adds to the existing solution a new barbiturate with a chiral
side chain?

d) These complexes have also been visualised on graphite by a scanning probe
microscopy method. Which technique has been used and why? Give a short description how this technique works.

5. How to make an ultrasmall pH sensorbased upon conductivity measurements. How does it work?

'''Unknown date'''

1. Nanowire

a) A silicion nanowire is made using 20nm nanocluster of gold. Explain which technique is used and how it works (really know how it works and what it needs and different changes in the process).
the nanowire is mixed into a solution of 1%functionalizing thing that I can’t remember and ethanol, write down the product.

c) You want to use the nanowire as a sensor for viruses in a ‘device’, Explain how to make this device? (explain and really know what parts are needed and how it works, but not how it is produced)
d) There are many long 1 micron wires and you want to order them (picture similar to logs in a pond). Explain how you can do this using a bottom-up technique. (Basically what technique???)
e) How can you image the ‘device’ that you explained on c) Which technique is the best for this and how does it work? Why are the other techniques worse??

2. True or false:

a) Sometimes a constant energy flux is needed to make ordered patterns.
Adding surfactants to water makes the surface tension higher

c) Can’t remember the other ones!!! But you get the style basically write down why it is write/wrong and really know and explain why.

3. “self-healing” There is a thermoreversible polymer that when you cut or break it is only necessary to bring these parts together and the parts reattach themselves. This is done at room temperature. (Wording in this question is key to recognizing what we are working with in this question, since I am an oversimplifying person I do not remember all the exact wording: Basically it dealt with supramolecular polymers)

a) What is the ‘principle’ behind this?
What interactions are behind this and how can we tune them? (Really know which ones and how we can lower/increase them)
c) Mention a similar material that has becomes useful because of it temperature dependance properties that are not common for regular polymers (basically difference between supramolecular polymers and regular ones)

'''June 14th 2014, afternoon'''

1.

You get a picture of a new photovoltaic cell. It is made from CdSe nanorods and organic semiconductor. HOMO and LUMO for both materials are given. and also a graph with the absorbency for each wavelength of the photovoltaic cell for CdSe quantum dots, short nanorods, and a bit longer nano rods.

a) What are the function of the materials and how does this device work
How do you change the bandgap of the CdSe nanorods
c) why is the efficiency of the device bigger for nanorods then for quantum dots
d) How do you make nanorods in stead of quantum dots
e) How would you study the structure of this device

2.

a) How can you make a sensor for for instance negatively charged proteins by using nanowires? ?
c) What are the benefits of this kind of device.

3.

The structure of a molecule to that could dispense CNTs in organic solvents was given, it contained a aromatic group and an alkyl chain.

a) Why is it not so easy to dispense CNTs in a solven
b) How does the molecule dispence the CNT
c) What molecular interactions are involved in this mechanism

4.

True are false questions

a) Is the Mie therory valid for semiconductor nanoparticles with a diameter of 10 nm
b and c) can't remember
d) are all molecular interactions for self assembly where entropic forces are involved only possible in water?
5th: a question about the layer by layer method, can't remember it exactly

'''Unknown date'''
answers are not all exactly correct, but gives you a thinking in the right way

1. detection of adsorbic acid in for instance fruit juice you get a picture and I'll try to give an explanation. Sensing goes via functionalized nano particle. A gold nanoparticle has 4 DNAenzymes, with a fluor atom in the middle of enzyme (DNAenzyme: SH-ATTC...G-fluor-AGGGTCC....) and there is a DNA strand with complementary nucleotides of the dna enzyme, and it has a loop (on the place were the fluor is) with Ca2+ in the loop. if this sensor detect AA, then you have left the gold nano-particles, still with some dnaenzyme (just only a little part), 4 fluor atoms still bounded on the other half of the enzyme, en 4 dnastrands with Ca2+. The intensity of the fluor is enhanced.

a) how is gold nano particle, not yet functionalized with DNA, prepared knowing that the experiments and synthesis carried out in aqueous solution
--> Chapter 16, metal nanoparticles in aqueous solution, it is with the citrate (that gives also stability)

detection is based on fluorescence; why does the intensity of the fluorescence increases after adsorption of AA?
--> something with the gold: if the flour is too close to the gold, the gold inhibits the fluorescence

c) how are the oglionucleotides bounded to the gold nano particle? explain
--> receptor ligand, (receptor is the thiol) and this binding is stronger than the one of the citrate

d) wich spectroscopy? eg: UV/Vis
e) what is the (chemical) role of Au particle here?
--> catalysation of breaking the dna enzyme and the dna

2.goldnanoparticles are grown like the classical nucleation model, have broad spectrum plasman resonance. --> explain everything of SPR, explain everything of (de)focussing, so the growth procedure of a nano particle, and finally: you have different nanoparticles with diff sizes and all together they result in a broad SPR

3. picture of molecule with aromatic part en alkyl part this molecule helps to dispersce SWCNT a) give a posible mechanism (draw) it was something with H-bonding of the N en =O from the aromatic part wat are the reactions of the alkyl and the aromatic part (alkyl will disolve in the organic solution..)

4. a rod goes to an ordered structure, explain the energetics something with delta G = detla H - T*delta S and look to chapter LC, similar to Onsager hard-rod model)

5. how would you make a drawing of 70 nm width form thiols on gold substrate en how do you change the witdt? - dip pen nano lithography

'''Unknown date'''
Similar like previous years:

- How do you make a n-type siliconwire from gold particles (VLS) - It is covered with some alkyls, draw the chemistry and how would you do that (SAM) - It is used as protein sensor, how does it work? - How would we measure this? AFM - How can we prevent non-specific interactions with proteins?

True/false:

20nm gold particles are chosed for their better quantum yield then semicondutors when used as fluorescence sensor --> wrong, no fluorescence, particle is too large

A wire like above is better for sensing lower concentration proteins when it has a larger diameter. --> wrong i think, not sure. Smaller diameter = lower conduction --> bigger effect from proteins, more sensitive.

LBL question like in excercise session 1, in fact it is the exact same question but he uses polymer X and polymer Y and he reversed the question, asking when polymer X would have the thinnest layer. You have to make a table with = ~ > < in.

He does go pretty deep into it with extra questions during the oral examination, for instance he asked me how many times the AFM tip will tap per second in tapping mode... (had no idea)

'''Unknown date'''

Right or Wrong
Discuss the chemistry of a silane agent ( trichlorooctylsilane) in a ethanol solution, when a gold substrate is dipped into the solution. Or something like that.

So the silane hydrolises and forms a SAM on the surface, but since you're using gold and gold forms no oxide , this doesn't work. So the answer was wrong

Right or wrong
Nanoparticle formation is driven by kinetics instead of thermodynamics

Question about soft lithography,
Substrate is given and drawn, then photo-resist is spun unto it and a square is etched out, gold is deposited and then chromium layer is deposited,after this acetone is used, HNO3 and then some surface layer draw the new substrate, so after al these steps.add what is what so surface and bulk materials than he asks why you use acetone ( remove Photo-resist) HNO3 ( oxidize chromium) and then the surface layer .

give two methods for evaluating polarity of a surface on macro scale and on nano scale
I said AFM for nano ,the AFM with the chemically modified tip don't remember the name and contact angle measurements for the macro

last question was a picture of + and - charged ballz and then they self assemble and you had to sum up all the energetics involved.

So the questions are quit easy when you have your book, but as stated above, he does go into a lot of detail when asking smaller questions.

'''Unknown date'''

1. Contained several part. All were related to forming patterns with Alkyl thiols on substrate except for one. Need to explain the approach that will be taken to form the following patterns and motivation for the same

a. Monolayer on top of gold substrate b. First, Monolayer on top of gold substrate. After this, the height of alkyl thiols have to be changed at certain islands (diameter ~ 10 nm) c. Stripes of alkyl thiols (dimensions in um) d. Alkyl thiol islands at certain positions of gold (dimensions in nm) e. A drawing made of alkyl-thiol f. Pattern made of naked Au clusters on top of Si g. How do you visualize the structures made in d? Provide the Best method

2. True/False

a. +ve/-ve amphiphiles reduce the surface tension. Neutral ones dont reduce it. b. Gold nanoparticles have less quantum yield than semiconducting ones and so not used for fluorescent labeling of cells.

'''27/06 exam'''
1. from paper: hybrid polymer-CdSe solar cells.. there are pics of the device and efficiency of solar cells vs length of CdSe nanorods (positive relation)

a. explain how it works and state the function of each in the device (there are Al, PEDOT:PSS, polymer-CdSe blend, ITO, Substrate)

b. how to play with bandgap?

c. why longer nanorods is more efficient?

d. how you make nanorods instead of nanodot?

e. how you measure the topography and composition?

2. a. explain nanowire-based protein detection

b. draw the output

c. what is the advantage?

3. a. why CNT can't be dispersed?

b. what is ur suggested solution?

c. (pic is shown consist of benzene) why this molecules can disperse the CNT?

4. T/F

a. mie theory explains flouroscense of CdSe at 10nm

b. entropy-driven self assembly can only happen in water

'''Unknown date'''

1) A solar cell built from an organic donor and a CdSe nanorod blend acceptor: -explain the working principle -why nanorods? do they have a better efficiency than quantumdots? (shape is better, rods are electronic highways (that's what he said to me )) -how would you examine the structure at nm scale (i just explained stm and it seemed fine for him)

2) true/false -a solution of CdSe nanoparticles has a broad absorption spectrum. when we evaporate the solute, the remaining nanoparticles must have a broad spectrum too, as a result of ostwald ripening. (ostwald has nothing to do here, the particles are allready stable and won't grow) -the insolubility of benzene (and aromats in general) is an enthalpic effect

3)-You want to make a uniform monolayer of an alkyl thiol on gold, how? -> he asked me to give the reaction of the S on AU releasing H2 -You want to make specific islands with thyiols that have a longer alkyl chain -You want to make "trench-shaped" structures of 5µm width -> pdms stamping can go to 50nm -> he asked the chemical structure of PDMS and how the thiols bind to it and how long you would have to press (wtf?)

4) Something about layer by layer deposition and linear charge distrubution vs surface charge distribution. We had to make a table and compare LCD and SCD in several dippings.

'''20 June 2014'''

Q#1: Detection of adsorbic acid in for instance fruit juice you get a picture and I'll try to give an explanation. Sensing goes via functionalized nano particle. A gold nanoparticle has 4 DNAenzymes, with a fluor atom in the middle of enzyme (DNAenzyme: SH-ATTC...G-fluor-AGGGTCC....) and there is a DNA strand with complementary nucleotides of the dna enzyme, and it has a loop (on the place were the fluor is) with Ca2+ in the loop. if this sensor detect AA, then you have left the gold nano-particles, still with some dnaenzyme (just only a little part), 4 fluor atoms still bounded on the other half of the enzyme, en 4 dnastrands with Ca2+. The intensity of the fluor is enhanced.

a) How is gold nano particle, not yet functionalized with DNA, prepared knowing that the experiments and synthesis carried out in aqueous solution. b) Detection is based on fluorescence; why does the intensity of the fluorescence increases after adsorption of AA?. c) How are the oglionucleotides bounded to the gold nano particle? explain. d) Which spectroscopy technique can you use to detect gold nanoparticles concentration in solution?. e) Why does using gold nanoparticles in solution gives you 2X better results that using ordinary techniques... Explain the methods and comparisons for both techniqes in detail.

Q#2 Gold nanoparticles are grown like the classical nucleation model, have broad spectrum plasmon resonance. a) What is the effect on emission spectrum if low precursor concentration in used to make gold nanoparticles ?

Q#3 Picture of molecule with aromatic part and alkyl part this molecule helps to dispersce SWCNT. a) Give a possible mechanism for this molecule interation with SWCNT(draw). Also explain the details about this molecule b) What are the reactions of the alkyl and the aromatic part? c) Why is it difficult to separate these SWCNTs ?

'''June 23rd 2014 8:00'''

Q#1 There is a picture of organic molecule given that self-assembles into conductive rod. It has N atom in the middle with 2 extra elextrons and 3 single bonds with 3 benzene rings and then hydro-carbon chains. On second picture there are these rods aligned between two electrodes perpendicular to their surface |----| a) what drives that to assemble b) what makes it align between electrodes

Q#2 There is picture of lamellar and pillars structure. In the middle of one of the materials there are CdSe nano-particles a) what compound and how can form these structures b) assume the surface of structure is perfectly flat, how can you visualize what material is where on nanoscale c) particles start to aggregate, haw will it affect florescence spectra (with and shift)

Q#3 There is a picture of rods that are positively charged. When concentration increases they form LC phase. What is the driving force?

Q#4 There is picture from the paper showing a new way of forming a monocrystal. First there is an amorphous phase formed on a surface, then there are crystal domains that with help of this surface merge into one crystal that then continue to grow. What is the difference between that and classical crystallisation theory?

b)

'''June 24th 2014 10.00'''
Q#1

How do you make a gold surface hydrophilic/hydrophobic?
How do you tune the hydrophobicity (he doesnt want the switching mechanisms but a 'continuous' tuning by adding a certain ratio of different molecules to the SAM)
How would you detect the macroscopic hydrophobicity? Explain the method.
The hydrophobicity varies on the micrometer scale. What method do you use to measure local hydrophobicity?

Q#2

An n-type SiNW is used for the detection of a positively charged protein

Describe the operation (not the fabrication) of this device.
Right/Wrong: The sensitivity of this device increases when the SiNW diameter increases
Describe the characterization method (full AFM description)

Q#3

Researchers have made an aggregate of gold NP and ironoxide NP, so-called NP hyperclusters. This method is proposed as an alternative to the electrostatic polymer LBL method to create alternating layers. The researchers added linker molecules to stabilize the aggregate and to give the film a more homogeneous thickness.

Give a method to separate gold and ironoxide NP in solution (you can give a variety of methods but he says magnetism is the simplest)
Describe a protocol to make a solution of gold NP in water (straight from the course)
Ironoxide NP are made using an inhouse method and functionalized using octylamine. The NP themselves are formed using FeCl3 and PEG (polyethyleneglycol) as reductans and solvent. Afterwards the functionalization is modified by substituting APTMS (aminopropyl-trimethoxysilane) using trace amounts of CH3COOH. Write down the chemistry and give a cartoon diagram of the result.

Q#4

Right/wrong and explain: Mie theory describes the significant shift of plasmon frequency (540-->650nm) upon aggregation.

Chemistry at nanometer scale

2018-05-20T09:12:09Z

Wvg1995: /* Vakinformatie */

[[Categorie:Machemie]]
=Vakinformatie=
Chemistry at nanometer scale
==Examenvragen==

Nanostructured Biomacromolecules

2018-01-30T13:42:49Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''29 januari 2018'''

Oral examination by professor Nies

''Professor Maglia''

1) Basic principle of double strand displacement and design AND gate on the basis of given inputs

''Professor Mizuno''

1) Explain mechanism and regulations of muscle contraction

'''17 januari 2018'''

Oral examination by professor Nies

''Professor Maglia''

Dynamic DNA nanotechnology by strand displacement:
1) describe the basic principle
2) design an AND gate and by-product by using the DNA strand depicted below

Input A: 1*2*3*
Input B : 3 4 5

Output C: 4 6 5

this is normally an example given in the course slides

''Professor Mizuno''

Describe the molecular mechanism of anterograde vesicle transport along the microtubules in cells

Terms: alpha tubulin/ beta tubulin, relay helix, neck linker, kinesin P-loop and ATPase

===12 january 2018===

Oral exam with Prof Mizuno or Prof Nies if you completed his assignment.

''Prof Mizuno''
#Describe how calcium is involved in muscle contraction.
#Oral questions on the details of calcium transport and the exact channels used

''Prof Nies''
# General structure of an amino acid
# Discuss the surfaces used in molecular simulations
# What conditions are controlled and observed in canonical ensemble setup for MD simulations?

''Prof Maglia''
#How are nanopores used for sequencing

'''8 January 2016'''

''Prof Marc De Mayer''

1.Give the full charge (non polar) Amino Acids. influence your choice?

2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

''Prof Mizuno''

Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

''Prof Maglia Giovani''

Chose one of the following questions:

1.2D and 3D strutures question. principle and application.

2.DNA Strand Displacement. principle, applications.

3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''

Oral parts by prof. De Maeyer and prof. Mizuno

''Prof. Maglia''

One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

''Prof. Nies''

Question 1

Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2

A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

''Prof. Mizuno''

Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

''Prof. De Maeyer''

1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''

''Prof de Maeyer''

How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

''Prof Mizuno''

A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

''Prof Nies''

Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

''Prof Maglia'' (answer 1 out of 2 questions)

Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

''Prof de Maeyer''

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

''Prof Mizuno''

Explain the principle behind kinesin movement on microtubuli.

''Prof Nies''

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

''Prof Maglia'' (answer 1 out of 2 questions)

Explain nanopores

Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T19:25:26Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''17 januari 2018'''

Oral examination by professor Nies

''Professor Maglia''

Dynamic DNA nanotechnology by strand displacement:
1) describe the basic principle
2) design an AND gate and by-product by using the DNA strand depicted below

Input A: 1*2*3*
Input B : 3 4 5

Output C: 4 6 5

this is normally an example given in the course slides

''Professor Mizuno''

Describe the molecular mechanism of anterograde vesicle transport along the microtubules in cells

Terms: alpha tubulin/ beta tubulin, relay helix, neck linker, kinesin P-loop and ATPase

'''8 January 2016'''

''Prof Marc De Mayer''

1.Give the full charge (non polar) Amino Acids. influence your choice?

2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

''Prof Mizuno''

Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

''Prof Maglia Giovani''

Chose one of the following questions:

1.2D and 3D strutures question. principle and application.

2.DNA Strand Displacement. principle, applications.

3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''

Oral parts by prof. De Maeyer and prof. Mizuno

''Prof. Maglia''

One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

''Prof. Nies''

Question 1

Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2

A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

''Prof. Mizuno''

Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

''Prof. De Maeyer''

1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''

''Prof de Maeyer''

How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

''Prof Mizuno''

A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

''Prof Nies''

Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

''Prof Maglia'' (answer 1 out of 2 questions)

Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

''Prof de Maeyer''

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

''Prof Mizuno''

Explain the principle behind kinesin movement on microtubuli.

''Prof Nies''

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

''Prof Maglia'' (answer 1 out of 2 questions)

Explain nanopores

Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T19:25:01Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''17 januari 2018'''

''Professor Maglia''

Dynamic DNA nanotechnology by strand displacement:
1) describe the basic principle
2) design an AND gate and by-product by using the DNA strand depicted below

Input A: 1*2*3*
Input B : 3 4 5

Output C: 4 6 5

this is normally an example given in the course slides

''Professor Mizuno''

Describe the molecular mechanism of anterograde vesicle transport along the microtubules in cells

Terms: alpha tubulin/ beta tubulin, relay helix, neck linker, kinesin P-loop and ATPase

'''8 January 2016'''

''Prof Marc De Mayer''

1.Give the full charge (non polar) Amino Acids. influence your choice?

2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

''Prof Mizuno''

Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

''Prof Maglia Giovani''

Chose one of the following questions:

1.2D and 3D strutures question. principle and application.

2.DNA Strand Displacement. principle, applications.

3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''

Oral parts by prof. De Maeyer and prof. Mizuno

''Prof. Maglia''

One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

''Prof. Nies''

Question 1

Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2

A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

''Prof. Mizuno''

Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

''Prof. De Maeyer''

1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''

''Prof de Maeyer''

How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

''Prof Mizuno''

A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

''Prof Nies''

Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

''Prof Maglia'' (answer 1 out of 2 questions)

Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

''Prof de Maeyer''

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

''Prof Mizuno''

Explain the principle behind kinesin movement on microtubuli.

''Prof Nies''

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

''Prof Maglia'' (answer 1 out of 2 questions)

Explain nanopores

Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T19:05:31Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''8 January 2016'''

''Prof Marc De Mayer''

1.Give the full charge (non polar) Amino Acids. influence your choice?

2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

''Prof Mizuno''

Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

''Prof Maglia Giovani''

Chose one of the following questions:

1.2D and 3D strutures question. principle and application.

2.DNA Strand Displacement. principle, applications.

3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''

Oral parts by prof. De Maeyer and prof. Mizuno

''Prof. Maglia''

One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

''Prof. Nies''

Question 1

Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2

A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

''Prof. Mizuno''

Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

''Prof. De Maeyer''

1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''

''Prof de Maeyer''

How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

''Prof Mizuno''

A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

''Prof Nies''

Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

''Prof Maglia'' (answer 1 out of 2 questions)

Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

''Prof de Maeyer''

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

''Prof Mizuno''

Explain the principle behind kinesin movement on microtubuli.

''Prof Nies''

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

''Prof Maglia'' (answer 1 out of 2 questions)

Explain nanopores

Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T19:04:04Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''8 January 2016'''

''Prof Marc De Mayer''

1.Give the full charge (non polar) Amino Acids. influence your choice?

2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

''Prof Mizuno''

1.Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

''Prof Maglia Giovani''

Chose one of the following questions:

1.2D and 3D strutures question. principle and application.
2.DNA Strand Displacement. principle, applications.
3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''

Oral parts by prof. De Maeyer and prof. Mizuno

''Prof. Maglia''

One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

''Prof. Nies''

Question 1

Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2

A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

''Prof. Mizuno''

Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

''Prof. De Maeyer''

1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''

''Prof de Maeyer''

How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

''Prof Mizuno''

A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

''Prof Nies''

Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

''Prof Maglia'' (answer 1 out of 2 questions)

Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

''Prof de Maeyer''

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

''Prof Mizuno''

Explain the principle behind kinesin movement on microtubuli.

''Prof Nies''

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

''Prof Maglia'' (answer 1 out of 2 questions)

Explain nanopores

Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T19:00:23Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''8 January 2016'''

[[Prof Marc De Mayer]]

1.Give the full charge (non polar) Amino Acids. influence your choice?

2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

[[Prof Mizuno]]

1.Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

[[Prof Maglia Giovani]]

Chose one of the following questions:

1.2D and 3D strutures question. principle and application.
2.DNA Strand Displacement. principle, applications.
3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''

Oral parts by prof. De Maeyer and prof. Mizuno

[[Prof. Maglia]]

One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

[[Prof. Nies]]

Question 1

Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2

A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

[[Prof. Mizuno]]

Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

[[Prof. De Maeyer]]

1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''

[[Prof de Maeyer]]

How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

[[Prof Mizuno]]

A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

[[Prof Nies]]

Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

[[Prof Maglia]] (answer 1 out of 2 questions)

Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

[[Prof de Maeyer]]

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

[[Prof Mizuno]]

Explain the principle behind kinesin movement on microtubuli.

[[Prof Nies]]

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

[[Prof Maglia]] (answer 1 out of 2 questions)

Explain nanopores

Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T18:57:55Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''8 January 2016'''

Prof Marc De Mayer

1.Give the full charge (non polar) Amino Acids. influence your choice?

2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

Prof Mizuno

1.Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

Prof Maglia Giovani

Chose one of the following questions:

1.2D and 3D strutures question. principle and application.
2.DNA Strand Displacement. principle, applications.
3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''

Oral parts by prof. De Maeyer and prof. Mizuno

Prof. Maglia

One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

Prof. Nies

Question 1

Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2

A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

Prof. Mizuno

Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

Prof. De Maeyer

1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''

Prof de Maeyer

How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

Prof Mizuno

A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

Prof Nies

Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

Prof Maglia (answer 1 out of 2 questions)

Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

Prof de Maeyer

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

Prof Mizuno

Explain the principle behind kinesin movement on microtubuli.

Prof Nies

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

Prof Maglia (answer 1 out of 2 questions)

Explain nanopores

Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T18:57:21Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''8 January 2016'''

Prof Marc De Mayer

1.Give the full charge (non polar) Amino Acids. influence your choice?

2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

Prof Mizuno

1.Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

Prof Maglia Giovani

Chose one of the following questions:

1.2D and 3D strutures question. principle and application.
2.DNA Strand Displacement. principle, applications.
3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''

Oral parts by prof. De Maeyer and prof. Mizuno

Prof. Maglia

One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

Prof. Nies

Question 1

Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2

A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

Prof. Mizuno

Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

Prof. De Maeyer

1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''

Prof de Maeyer

How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

Prof Mizuno

A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

Prof Nies

Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

Prof Maglia (answer 1 out of 2 questions)

Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

Prof de Maeyer

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

Prof Mizuno

Explain the principle behind kinesin movement on microtubuli.

Prof Nies

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

Prof Maglia (answer 1 out of 2 questions)

Explain nanopores
Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T18:56:43Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''8 January 2016'''

Prof Marc De Mayer

1.Give the full charge (non polar) Amino Acids. influence your choice?

2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

Prof Mizuno

1.Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

Prof Maglia Giovani

Chose one of the following questions:

1.2D and 3D strutures question. principle and application.
2.DNA Strand Displacement. principle, applications.
3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''

Oral parts by prof. De Maeyer and prof. Mizuno

Prof. Maglia

One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

Prof. Nies
Question 1
Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2
A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

Prof. Mizuno
Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

Prof. De Maeyer
1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''
Prof de Maeyer
How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

Prof Mizuno
A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

Prof Nies
Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

Prof Maglia (answer 1 out of 2 questions)
Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

Prof de Maeyer

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

Prof Mizuno

Explain the principle behind kinesin movement on microtubuli.

Prof Nies

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

Prof Maglia (answer 1 out of 2 questions)

Explain nanopores
Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T18:56:04Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''8 January 2016'''

Prof Marc De Mayer

1.Give the full charge (non polar) Amino Acids. influence your choice?

2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

Prof Mizuno

1.Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

Prof Maglia Giovani
Chose one of the following questions:

1.2D and 3D strutures question. principle and application.
2.DNA Strand Displacement. principle, applications.
3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''
Oral parts by prof. De Maeyer and prof. Mizuno

Prof. Maglia
One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

Prof. Nies
Question 1
Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2
A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

Prof. Mizuno
Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

Prof. De Maeyer
1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''
Prof de Maeyer
How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

Prof Mizuno
A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

Prof Nies
Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

Prof Maglia (answer 1 out of 2 questions)
Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

Prof de Maeyer

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

Prof Mizuno

Explain the principle behind kinesin movement on microtubuli.

Prof Nies

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

Prof Maglia (answer 1 out of 2 questions)

Explain nanopores
Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T18:55:48Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''8 January 2016'''

Prof Marc De Mayer

1.Give the full charge (non polar) Amino Acids. influence your choice?
2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

Prof Mizuno
1.Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

Prof Maglia Giovani
Chose one of the following questions:

1.2D and 3D strutures question. principle and application.
2.DNA Strand Displacement. principle, applications.
3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''
Oral parts by prof. De Maeyer and prof. Mizuno

Prof. Maglia
One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

Prof. Nies
Question 1
Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2
A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

Prof. Mizuno
Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

Prof. De Maeyer
1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''
Prof de Maeyer
How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

Prof Mizuno
A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

Prof Nies
Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

Prof Maglia (answer 1 out of 2 questions)
Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

Prof de Maeyer

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

Prof Mizuno

Explain the principle behind kinesin movement on microtubuli.

Prof Nies

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

Prof Maglia (answer 1 out of 2 questions)

Explain nanopores
Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T18:55:29Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

'''8 January 2016'''

Prof Marc De Mayer
1.Give the full charge (non polar) Amino Acids. influence your choice?
2.How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

Prof Mizuno
1.Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).

Prof Maglia Giovani
Chose one of the following questions:

1.2D and 3D strutures question. principle and application.
2.DNA Strand Displacement. principle, applications.
3.Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.

'''26 January 2015'''
Oral parts by prof. De Maeyer and prof. Mizuno

Prof. Maglia
One of both:
1.Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2.Nanopores can be used to sense molecules.

Describe:
the basic principle nanopore sensing
what and how analytes can be detected with nanopores
limitations and how to overcome such limitations

Prof. Nies
Question 1
Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST

Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.

Question 2
A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
- calculate the contour length
- calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
- calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.

Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8

Prof. Mizuno
Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.

Prof. De Maeyer
1.You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.

2.X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?

'''Januari 2014'''
Prof de Maeyer
How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
Give the polar non charged amino acids

Prof Mizuno
A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instability, P-loop, Centromere, etc.

Prof Nies
Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers?
Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).

Prof Maglia (answer 1 out of 2 questions)
Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
Explain Dynamic DNA nanotechnology

'''January 2013'''

Prof de Maeyer

Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
Give the aromatic hydrophobic amino acids

Prof Mizuno

Explain the principle behind kinesin movement on microtubuli.

Prof Nies

Question about polymer calculations (cf exercise session)
Calculate the dependence of diblock polymer long period length on parameters

Prof Maglia (answer 1 out of 2 questions)

Explain nanopores
Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T18:51:14Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

8 January 2016

Prof Marc De Mayer
1. 1-give the full charge (non polar) Amino Acids. influence your choice?
2. 2-~~ How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.

Prof Mizuno
1. Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).
 Prof Maglia Giovani
Chose one of the following Question:
1.
1. 2D and 3D strutures question. principle and application.
2. DNA Strand Displacement. principle, applications.
2. Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.
26 January 2015
Oral parts by prof. De Maeyer and prof. Mizuno
 Prof. Maglia
One of both:
1. Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2. Nanopores can be used to sense molecules.
Describe:
 the basic principle nanopore sensing
 what and how analytes can be detected with nanopores
 limitations and how to overcome such limitations
 Prof. Nies
Question 1
Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST
Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.
Question 2
A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
6. calculate the contour length
7. calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
8. calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.
Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8
 Prof. Mizuno
Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.
 Prof. De Maeyer
1. You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.
2. X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?
Januari 2014
 Prof de Maeyer
 How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
 Give the polar non charged amino acids
 Prof Mizuno
 A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instatbility, P-loop, Centromere, etc.
 Prof Nies
 Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
 What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers? Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).
 Prof Maglia (answer 1 out of 2 questions)
 Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
 Explain Dynamic DNA nanotechnology
January 2013
 Prof de Maeyer
 Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
 Give the aromatic hydrophobic amino acids
 Prof Mizuno
 Explain the principle behind kinesin movement on microtubuli.
 Prof Nies
 Question about polymer calculations (cf exercise session)
 Calculate the dependence of diblock polymer long period length on parameters
 Prof Maglia (answer 1 out of 2 questions)
 Explain nanopores
 Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T18:50:56Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]
==Vakinformatie==
Dit vak is een keuzevak in de opleiding master in de chemie. Het wordt gegeven door 3 professoren: professor Mizuno, professor Maglia en professor De Maeyer/professor Nies. De laatste twee wisselden elkaar af tot het academiejaar 2017-2018, professor de Maeyer ging op pensioen dus nam professor Nies zijn deel van het vak over.

Elke professor geeft tijdens dit vak 4 lessen over zijn onderwerp en op het einde zijn er presentaties die gegeven worden door jij en je medestudenten. Deze presentaties zijn per twee en de duo's worden door professor Mizuno onderverdeeld en zijn niet vrij te kiezen. Dit vak wordt ook nog gevolgd door de mensen uit de Erasmus mundi master van nanochemie dus meestal zal het samenwerken voor de presentatie met een van hen verlopen.

Professor Maglia geeft les over dynamische nanotechnologie en het gebruik van nanopores.
Professor Mizuno geeft les over het cytoskelet, motor proteïnen en fluorescerende proteïnen.
Professor Nies gaf voor 2017-2018 een deel over synthetische polymeren, maar gaf in het jaar 2017-2018 les over het computationeel modelleren van proteïne eigenschappen (is vgl met het vak computationele chemie uit de 3de bachelor chemie, maar dan veel minder wiskunde en een stuk interessanter les gegeven).

Beoordeling van dit vak gebeurt op meerdere criteria:
- presentatie gegeven tijdens het semester
- mondeling examen met schriftelijke voorbereiding (gesloten boek) met 1-2 vragen per professor (er kan niet bij elke professor mondeling verdedigd worden, hangt af van welke professor beschikbaar is op de examinering dag)
- examinering van het deel van professor Nies bestond van het lezen van een paper over computationele modellering van proteïnen en deze linken aan de cursus + een paar korte vragen tijdens het mondelinge deel (dit was zo in het academiejaar 2017-2018, gelieve aan te passen indien zijn examinering anders verloopt)

==Examenvragen==

8 January 2016
 Prof Marc De Mayer
1. 1-give the full charge (non polar) Amino Acids. influence your choice?
2. 2-~~ How can we obtain thermal stabilization in proteins and DNA ? <<< it was about using Dead end elimination theory and eliminate some rotamers, also asked in oral to show that on the graph of rotamers energy.
 Prof Mizuno
1. Explain every thing you know about Muscle Contraction / Myosin, and plot as much as you can. and some terms to be clarified during your answer like ( P-loop, Sarcomer, T-tubules......etc).
 Prof Maglia Giovani
Chose one of the following Question:
1.
1. 2D and 3D strutures question. principle and application.
2. DNA Strand Displacement. principle, applications.
2. Explain a Re configurable self assembly structure. << this is a part of the paper of Strand displacement.
26 January 2015
Oral parts by prof. De Maeyer and prof. Mizuno
 Prof. Maglia
One of both:
1. Dynamic DNA nanotechnology by strand displacement: basic principle, examples and applications.
2. Nanopores can be used to sense molecules.
Describe:
 the basic principle nanopore sensing
 what and how analytes can be detected with nanopores
 limitations and how to overcome such limitations
 Prof. Nies
Question 1
Explain the following concepts and defenitions:
1. Δmixg</math>
2. coexistence curve
3. spinodal
4. critical state
5. LCST
Figure 1 gives a graphical presentation of Δmixg. Discuss how one can "see" and/or determine the different definitions (b-e) in graphical presentations such as in Figure 1.
To support your discussion, you can make use of more typical graphical presentations like that in Figure 1.
Question 2
A monodispers polystyrene (PS) has a molar mass M = 480kg/mol. The molecular formula of PS is -(CH2-CH(C6H5))n- and the chemical structure can be written as
figure of structure
6. calculate the contour length
7. calculate the unperturbed average quadratic end-to-end distance and radius of gyration of the PS molecule
8. calculate the number of Kuhn segments and the Kuhn length of the polystyrene chain.
Some data: C-C bond length = 0.154nm, C-C-C bond angle θ = 109°
molar mass C = 12g/mol, molar mass H = 1g/mol, C∞=9.8
 Prof. Mizuno
Describe how myosin and kinesin convert the chemical energy to the mechanical energy. What are roles of the P-loop and the relay helix? Give an example of biological phenomenon using respective motor proteins and explain. The answer should be understandable for layperson, and use schematic drawings.
 Prof. De Maeyer
1. You retrieve the coordinates of a PDB-protein structure from the databank. How would you evaluate if the model is OK?
Enumerate as many tests that you could think off, to do such an evaluation and clarify why these criteria are valid. You may want to use the formularium.
2. X-ray protein structures from the PDB do not always contain all the atom positions. Sometimes some of the side-chains are not solved in the electron density. How could you optimise these side-chains atom-coordinates after sprouting the missing atom-coordinates?
Januari 2014
 Prof de Maeyer
 How do you characterize H-bonds and Salt bridges in Force Fields(formularium given)? Discuss H bonds in more detail
 Give the polar non charged amino acids
 Prof Mizuno
 A certain process (forgot name) is used to carry cargo radially to the edge of a cell, discuss how this can happen (obviously Kinesin on Micro-Tubuli). Use the words neck linker, relay helix, dynamic instatbility, P-loop, Centromere, etc.
 Prof Nies
 Given an formula for Flam and Fhom, determine the condition for Chi*N for the transition (Basic math). Give a formula of Chi in function of N.
 What does the Gibs free energy of mixing of a solution of a polymer in solvent look like, in function of the volume fraction of polymers? Given the global volume fraction and the volume fractions of the different phases. Discuss the interesting properties of the graph (Mainly binodal and spinodal points).
 Prof Maglia (answer 1 out of 2 questions)
 Explain nanopore sequencing (Different technologies, how to detect a base, issues, solutions)
 Explain Dynamic DNA nanotechnology
January 2013
 Prof de Maeyer
 Salt bridges are charge-charge interactions. Where in a protein would you put them to stabilise it (formularium given)?
 Give the aromatic hydrophobic amino acids
 Prof Mizuno
 Explain the principle behind kinesin movement on microtubuli.
 Prof Nies
 Question about polymer calculations (cf exercise session)
 Calculate the dependence of diblock polymer long period length on parameters
 Prof Maglia (answer 1 out of 2 questions)
 Explain nanopores
 Explain protein technology

Nanostructured Biomacromolecules

2018-01-20T18:49:39Z

Wvg1995: /* Vakinformatie */

Bestand:Examen organische chemie 23-01-2017.jpeg

2017-08-27T17:51:23Z

Wvg1995:

Advanced Organic Chemistry

2017-08-27T17:50:52Z

Wvg1995: /* Examenvragen */

[[Categorie:Machemie]]

==Examenvragen==

[[Categorie:Machemie]]

[[Media:Examen organische chemie 23-01-2017.jpeg]]

===28 januari 2013 NM===
#Explain the following reaction. [[Bestand:org1.png]]
#How is given cyclopropane synthesized from diethyl malonate in several steps? Choose reagents such that a maximal yield is obtained. [[Bestand:org2.png]]
#This reaction scheme is an example of a benzannelation reaction. Upon heating, several consecutive steps happen so that the given end product is obtained. Among these steps are three electrocyclic reactions (two 4-electron and one 6-electron), a tautomerization, and a cycloaddition (not necessarily in this order). [[Bestand:org3.png]]
#Explain formation of this product in presence of base. [[Bestand:org4.png]]
#Give product A and explain how this reaction occurs. [[Bestand:org5.png]]
#What products will be formed in following reactions? [[Bestand:org6.png]]