Chris LB Graham

Find me on the widely known alternative site

[Chris LB Graham @ChrisLBGraham]

We finally released a little coevolution pipeline, so you can add coevolution to predicted structures. With this you can understand more how proteins may genetically interact, as heteromers, homomers or hypothetical networks (or perhaps not) https://t.co/20LWdjO2mh

[Chris LB Graham @ChrisLBGraham]

@paperperday I thought id mention that the coevolution idea is well known and has been for a while thanks to D Marks and D Baker and so many others, so not the most novel thing in the world! The tool is so anyone can visualise it themselves. Thanks for the help in spreading the knowledge.

[good papers @paperperday]

"we utilise coevolution to determine the likelihood of protein-protein interactions within proteins acting within the same biological pathway."

[Rodrigues Lab @CRodriguesLab]

Check out these tools to detect co-evolution in protein-protein interactions developed by postdoc @ChrisLBGraham

Very useful as a hypothesis generator, complementing protein interaction prediction from Alphafold.

https://t.co/ddKIaoD2dt

[Chris LB Graham @ChrisLBGraham]

ConservFold was down, due to weblogo dependency issues... so ive replaced weblogo with ggseqlogo for now. Its back up again. thanks @omarwagih for the existence of your package.

https://t.co/FWh4MozpjI

[Chris LB Graham @ChrisLBGraham]

We have updated ConservFold. Now it can plot conservation onto whole protein complexes and you can set the cutoffs you’d like! Thought it might be useful for people! https://t.co/zbatv0T1LB @CRodriguesLab

[Rodrigues Lab @CRodriguesLab]

Checkout out our computational framework, MemTorMD, for studying toroidal membranes of biological dimensions, present at division and fission sites. We studied lipid behaviour at these sites but also simulated membrane fission. Collaboration with @ChrisLBGraham and @pstansfeld

[Chris LB Graham @ChrisLBGraham]

Just released a pre-print: https://t.co/tSnqUuFPje We simulate lipid membrane toroids of bacteria, which represent the point just before one cell splits into two. We see they’re stable and then look at how a key protein might behave at them @pstansfeld @CRodriguesLab

[Chris LB Graham @ChrisLBGraham]

@thesteinegger This is awesome! Now we can all piggy back even more on this great server. Thanks

[Sergey Ovchinnikov @sokrypton]

🤯 Congratulations David Baker @UWproteindesign , @demishassabis and John Jumper!!

[Chris LB Graham @ChrisLBGraham]

@sokrypton @UWproteindesign @demishassabis congratulations you too! (by proxy?)

[Sergey Ovchinnikov @sokrypton]

Exciting new work from Qian Cong's group on predicting human protein interactome. Leveraging new eukaryotic genomes, new RoseTTAFold2 trained on +/- pairs of PPI and large distilled dataset of domain-domain interactions! 🤩

https://t.co/vsbJWdNze6

[Elliot Roth || SF @ThatMrE]

The lowest cost of laboratory space in San Francisco starts at $1750/mo. What would happen if we dropped that cost by 10x? How many more ideas and experiments would take place?

Introducing Cellsius (https://t.co/lin3WHJREx)

[Jack Bryant @Jack_A_Bryant]

🚨 job alert 🚨 Research technician role available working at University of Bristol with @ICadby !!! Ian is a fantastic scientist working on some very cool bacteria. Deadline is 11/06/2024 https://t.co/sE7eEdqBSv

[Chris LB Graham @ChrisLBGraham]

@pmoyniha Hi I just saw this, its basically a fasta file, you can use Aliview. You may have to remove the first line in .txt, if its weird looking and not fasta like: Here I removed mine for a co-evolution thing i was doing (two proteins) and this is what it looks like:

[David I Roper @davidroper2]

Dear Twitter sphere
Does anyone have a few mgs of durlobactam they could spare me please or know of a UK supplier?

[Chris LB Graham @ChrisLBGraham]

@sokrypton Can data filtering pull anything out from the large empty spaces of long distance contacts though? or is it pure noise?

[marc santolini @msantolini]

Our work on the trajectories of scientists in the knowledge space has been published in EPJ Data Science @epj_ds! We show that tools for studying human mobility can be applied to the mobility within scientific knowledge.🧵

https://t.co/epluFdLEq0

[Rodrigues Lab @CRodriguesLab]

Check out the beautiful Cryo tomography of B. subtilis spores by Cecile Morlot @IBS and collaborators. A pleasure to have participated in this work.
https://t.co/y9Un4zm6KG

[Sebastian S. Cocioba🪄🌷 @ATinyGreenCell]

Definitive proof that this sucrose selection system works.

Top Left: cells + plasmid on sucrose

Top Right: cells on sucrose

Bottom Left: cells + plasmid on glucose

Bottom Right: cells on glucose