Simon Butler

14 Questions 15 Answers 0 Followers

Questions related from Simon Butler

I have a small well 384 plate from IDT with around ~10ul per well. The wells seem to evaporate? at the edges or certainly disappear over time?

Hi This is very odd. Whenever I come back to the plate and defrost it (At room temp for a couple of hours) wells that I know had previously been filled have become void. Some of them I have now...

06 June 2019 9,134 4 View

Can Magnessium Chloride be used to adhere DNA origami to TEM slides?

Hi Can magnessium chloride be used to adhere DNA origamis to TEM slides in the same way it does mica? Im very excited to get new images but im very unfamiliar with the process. Some papers dont...

01 January 2019 8,872 0 View

Im trying to purify gold nanoparticles from DNA in solution via pelleting and resuspending - at what RCF will ~20 base pair DNA begin to pellet?

Im functionalising gold nanoparticles with thiolated DNA, this is done using excess DNA in solution, it is critical that once the procedure is complete any remaining DNA is completely removed....

09 September 2018 8,022 5 View

Cleaning gold nanoparticles by centrifuge. Seems to end up as an aggregated mess?

Hi Im functionalising gold nanoparticles with thiolated oligos. Part of all (Or all that Im aware) protocols require spinning the final solution down at 13,300 rpm for 20 minute cycles to...

11 November 2017 2,634 4 View

Could litmus paper be used to adjust a small ~1ml solution from ~7 to ph 3 then back up to ~7?

I want to functionalise thiolated oligonucleotides with gold nanoparticles. To this I need to adjust the ph of the solution to 3, add Na+, mix, then bring the solution back to 7. I cant be sure...

09 September 2017 262 4 View

Can I use a PCR purification column to remove TCEP from a sample of reduced, thiolated, ssDNA sequences?

Can a PCR purification column be used in this manner? Thanks

09 September 2017 5,601 3 View

Will DNA origami aggregate in purified water or TE buffer?

Hi Hollow DNA spheres. Im not getting a good number to stick to mica for imaging and they seem to be aggregating when I try and get a size distribution of them in a zetasizer. Im trying to use a...

08 August 2017 3,343 2 View

As oppose to cutting out bands on an electrophoresis gel would a size exclusion column be a effective way to seperate DNA origami from excess staples?

*Separate while still in annealing solution I have 100K Dalton protein exclusion columns. My DNA origami is a sphere shapes roughly 450K daltons. Staples are ~40K daltons.

05 May 2017 1,319 2 View

Matlab script to define N Z Mu and Epsilon from HFSS scatter parameters from a C resonator in the optical wavelength spectrum?

Hi I am having trouble accurately finding the refractive index of a structure I simulate in HFSS. I have been using chapter 3 of optical metamaterials (Wenshan Cai Vladimir Shalaev) to aid me in...

04 April 2017 718 2 View

Advice regarding SEM of DNA origami seeded with amine bound nanogold?

Hi I'm not having any success (Nothing visible on SEM) binding amine bound 1.4nm nanogold to DNA origami structures. I'm currently using a 100Kd protein concentration column, where origami and...

03 March 2017 1,102 4 View

Thoughts on functionalising gold nanoparticles with synthetic oligonucleotides for site specific attachment in to a larger DNA structure?

Having conducted global aggregation of gold to DNA origami and acheived some success I am now interested in pursuing site specific attachment. I am looking through the literature and have found...

03 March 2017 7,915 3 View

Is the cheapest/best (Any advice welcome) way of buying staple strands for a DNA origami project just by buying each oligo as 50bp as a 96 plate well?

Hi, Would people who have experience with DNA origami consider this a wise choice? Then obviously buying a scaffold separately? I realised that due to the curved 3D nature of my design there's is...

01 January 2017 7,518 8 View

Does anyone have experience using the online DAEDALUS DNA origami sequence finder? What kind of software is easy to use to create simple .ply designs?

I'm just trying to create nonlinear DNA origami constructs. I've been using caDNAno but its unsuitable for the creation of truly curved shapes as opposed to pseudo shapes created through a...

01 January 2017 8,725 2 View

Electromagnetic permeability (Mu) and permittivity (Epsilon) of liposomes and DNA?

I'm working on simulating (HFSS) visible light EM waves on metallic nanostrips on organic scaffolding structures. Does anyone have any suggestions about where to find the specific properties...

12 December 2016 3,958 1 View