Fiddling with the code and instruments for CryoET in between coffee, good food. Opinions are my own.
#teamtomo
Joined July 2017
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Hey #teamtomo checkout our team science approach to #cellbio #cryoET
I can’t thank @bengeliscious enough for this one 😍😍
Awesome team science from @MPI_Biochem @biozentrum @thermosciEMSpec and more
Signing off Twitter with a good one
biorxiv.org/content/10.1101/…
Order in Chaos brought to you by #TOMOMAN with generous support from @williamnwan #teamtomo #cryoet #insitu #opensource
biorxiv.org/content/10.1101/…
Same for @CryoSagar and STOPGAP, which was instrumental here. But it still remains really difficult to make this kind of analysis because the processing pipeline is not as streamlined as in SPA. Actually, sometimes it really looks like that:
Sagar retweeted
William Wan et al.: STOPGAP: an open-source package for template matching, subtomogram alignment and classification #STOPGAP #CryoET #OpenSource @vanderbiltu... #IUCr scripts.iucr.org/cgi-bin/pap…
#STOPGAP is now published 🥳🥳
With @williamnwan and Twitter less Jonathan Wagner
I must say, the peer review @ActaCrystD was as it should be, relevant, fast 😍
One of many to be published together with awesome @williamnwan
#teamtomo #opensource #cryoEM
Our manuscript for STOPGAP is now out in @ActaCrystD! It was great working with @CryoSagar
and twitterless Jonathan Wagner.
journals.iucr.org/d/issues/2…
Sagar retweeted
When I joined David Barford's group @MRC_LMB it was with the goal of using my cryo-ET and computational skills to help them understand funky biology. I joined @TDendooven and @StanislauY's efforts to average the native gamma tubulin ring complex (γTuRC) from tomograms of SPBs
Now all we need some is #communitycompute to mine all this data together! And visualize life at molecular detail! #cryoET goes #bigdata
Any thoughts from awesome people at @GoogleDeepMind @AmazonScience @nvidia @NVIDIAAI
time to go brrrrr!!!!
Hey #teamtomo Here is EMPIAR-11830!
Some 1800 tomograms from awesome #Chlamy (Chlamydomonas reinhardtii) using large scale #cryoET!
In addition , all the metadata and preprocessing as #minimalproject to get you started right away! #TOMOMAN #bigdata #communityscience 1/
Hey #teamtomo Here is EMPIAR-11830!
Some 1800 tomograms from awesome #Chlamy (Chlamydomonas reinhardtii) using large scale #cryoET!
In addition , all the metadata and preprocessing as #minimalproject to get you started right away! #TOMOMAN #bigdata #communityscience 1/
The new @EMDB_EMPIAR cryo-electron tomography (cryo-ET) browser allows you to see proteins up close in the cellular environment.
Over 1,800 high-resolution reconstructed tomograms from cryo-plasma-FIB milled Chlamydomonas reinhardtii cells are available.
ebi.ac.uk/about/news/announc…
Congrats @svenklumpe 🥳🥳
This map looks so cool! I think this was and is one of those discovery moments in cryo-ET!
Hey #teamtomo!! you can finally cite it properly! After ‘a while’ in making (mostly my fault🤣) , discussions on methods, philosophy, etc. with @williamnwan 🥳 it’s been a fun ride and I can only say look out for more 🤓😛
Just in time for Festivus, our preprint on STOPGAP is out! In it, we describe the subtomogram averaging algorithms we find useful. It was great working on this with @CryoSagar and twitterless Jonathan Wagner.
biorxiv.org/content/10.1101/…
Just go for it! Don’t blink ;) Cool stuff with even cooler scientists!!
My indispensable right hand Natalya Dudkina is hiring, join our exciting R&D group at Thermo Fisher Scientific as Application Engineer, Cryo-EM.
RT please!
jobs.thermofisher.com/GmABVU…
When @AbhayKot and I started this thing, this is what we envisioned! Thanks for the support from JP, @MPI_Biochem and @thermosciEMSpec we can now see the fruits ☺️ can’t wait for the release with @EMDB_EMPIAR! It’s been even more fun with @bengeliscious and team joined😍
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From Am Klopferspits 18 @MPI_Biochem to Achtseweg Noord 5 @thermosciEMSpec 😉 slowly making it to the mothership!
It’s been Amazing 5+years @MPI_Biochem with Juergen Plitzko! I have been fortunate to have great mentors as JP, @williamnwan, @3P1L. It’s been fun hanging out with and doing cool stuff with the Martinsried peeps and looking forward to more;)
And of course over past couple years collaborating with @AbhayKot and the team at @thermosciEMSpec has been amazing!
Now looking forward to amazing science we will do together @thermosciEMSpec 😍
I think we are baking some cool things;)
Hey #teamtomo
Have you tried playing with this data?!
I and @williamnwan have come up with a minimal #tomoman project setup for archival and sharing large cryo-ET datasets! And I am happy that folks @EMDB_EMPIAR agreed on going forward with it!
🐣#visualproteomics
Pioneering efforts of #teamtomo’s @AbhayKot from @thermofisher led to this spectacular lamella from S. cerevisiae, the entry includes all metadata and annotation of ribosomes! Published @biorxivpreprint (doi.org/10.1101/2023.08.18.5…). #empiar Data: EMPIAR.org/EMPIAR-11658
All of which could not have been possible without the support from
@MPI_Biochem @maxplanckpress and Juergen Plitzko😇😇, Florian Beck and many others😍
This has been a fun collaboration 😇😇 a year after our first discussion, I think we have a cool story and some cooler stuff in making!! It’s always fun collaborating with @ZhongingAlong and @AbhayKot
And of course the team😍😍
💪#teamtomo
This has been a fun collaboration 😇😇 a year after our first discussion, I think we have a cool story and some cooler stuff in making!! It’s always fun collaborating with @ZhongingAlong and @AbhayKot
And of course the team😍😍
💪#teamtomo
Our cryoDRGN-ET code is now released in version 3.0.0-beta of the cryodrgn ❄️🐉 software. Let us know if you have any feedback or questions!
github.com/ml-struct-bio/cry…
