Martin Pacesa @MartinPacesa
Structural biologist working on 🖥️ protein design and #CRISPR-Cas systems ✂️🧬 Avid weirdness connoisseur 🎩 Lausanne, Switzerland Joined December 2018-
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Oh nice! @Nature publishes another amazing advertisement for an amazing product masquerading as a scientific publication with no code, no model & a webserver that allows 10 queries at a time from a billion dollar company. But it's "gold" open access folks! Rejoice!
Although it is a very exciting development, it is sad to see that no code will be released, which would not be allowed for academic institutions @Nature. It was clear that weights will not be released (despite being trained purely on public data) but this I did not expect.
Although it is a very exciting development, it is sad to see that no code will be released, which would not be allowed for academic institutions @Nature. It was clear that weights will not be released (despite being trained purely on public data) but this I did not expect.
1/ CryoSPARC v4.5 is here! 🚀 Updates include a new micrograph denoiser, automatic 2D/3D class selection, direct file upload, new orientation diagnostics, improvements to Workflows, 3D classification, motion correction, volume alignment, and more! cryosparc.com/updates
The number of people congratulating this former PI really speaks to how deep the misogyny in academia runs. Scientific contributions should never outweigh the duty to moral and scientific integrity. Second chances shouldn’t be given at the expense of past and future trainees
#PubPeerPearl "who authorised you to scan data, pl. educate, you did not seek my permission before scanning my papers. Stop threatening. your intention seems to threaten people and destabilise workers." pubpeer.com/publications/A…
Today in my PI and I live in different worlds. He wants to look at some protein structures using alphafold and suggests I email David Baker if I have any questions. Sure, I also have some questions about Catholicism, should I email the pope about them?
- Mine millions of CRISPR operons - Finetune a protein language model - Generate active Cas9s, including OpenCRISPR-1, with 182 mutations from the closest nature Cas9 and lower off-target rates than SpCas9 @jeffruffolo @AadyotB @MartinPacesa @alexjmeeske @thisismadani
One of the first projects we took on at @ProfluentBio was designing novel gene editing proteins with language models. This grew into an initiative called OpenCRISPR, and today I’m excited to share that work (including the sequences we designed)! biorxiv.org/content/10.110…
Paper: biorxiv.org/content/10.110… Blog: profluent.bio/blog/editing-t… NYTimes: nytimes.com/2024/04/22/tec… Press Release: businesswire.com/news/home/2024… Access OpenCRISPR-1: forms.gle/zzPFYuesZXZGT5…
The results point to a future where AI precisely designs what is needed to create a range of bespoke cures for disease. There is still much to build to achieve this vision. To spur innovation and democratization, we are freely releasing OpenCRISPR-1. Try it out!
Through our #OpenCRISPR initiative, we are releasing this AI-designed gene editor as an initial open-source release with the goal of democratizing access to innovative gene editing technology. Learn how we can build together at profluent.bio
In the last 3 years, there were almost 160 papers citing this invaluable viral genomic database. Those who maintain it and update it monthly are doing so on a voluntary basis. What happens to this resource when they can't continue? What kind of funding is available for it?
In the last 3 years, there were almost 160 papers citing this invaluable viral genomic database. Those who maintain it and update it monthly are doing so on a voluntary basis. What happens to this resource when they can't continue? What kind of funding is available for it?
The journal club presented today was in computational design of soluble analogues of membrane proteins done by @CasperGoverde, @MartinPacesa et al. from the lab of @befcorreia.
Another game-changing work from @thesteinegger lab for the structural alignment of protein complexes. My lab had been struggling with this for years because no method was efficient enough to run PDB-wide searches. Now, you can go all-vs-all 💪 So happy to have contributed!
Another game-changing work from @thesteinegger lab for the structural alignment of protein complexes. My lab had been struggling with this for years because no method was efficient enough to run PDB-wide searches. Now, you can go all-vs-all 💪 So happy to have contributed!
Foldseek-Multimer is a protein complex aligner that is up to 10,000x times faster than SOTA methods without sacrificing quality, enabling the comparison of billions of complex pairs per day. 1/5 📄 biorxiv.org/content/10.110… 💾 github.com/steineggerlab/… 🌐 search.foldseek.com
Excited to share our latest collaborative work on the "hierarchical determinants of the oxidation-induced mutational landscape in human cells." biorxiv.org/content/10.110… An awesome experience combining powerful cell biology, genomics, and structural biology approaches.
Can I solve a structure using the @idtdna Alt-R CRISPR guides? With high enough resolution one could see the chemical modifications
Our method for molecular linker design with diffusion models (DiffLinker) got published in @NatMachIntell 🥳 nature.com/articles/s4225… Thanks a lot to our amazing coauthors @HannesStaerk Clément Vignac @rneschneuing @vgsatorras @pafrossard @wellingmax @mmbronstein @befcorreia
Sergey Ovchinnikov @sokrypton
12K Followers 3K Following Scientist, Assistant Professor @MITBiology, #FirstGen, ProteinBERTologist, 🇺🇦
Martin Jinek @MartinJinek
4K Followers 347 Following Biochemist, structural biologist, CRISPR enthusiast
Kevin K. Yang 楊凱�.. @KevinKaichuang
16K Followers 5K Following Senior Researcher in BioML @MSFTResearch (@MSRNE). He/him/他. 🇹🇼
Noelia Ferruz @ferruz_noelia
4K Followers 605 Following Group leader at @IBMB_CSIC in Barcelona. On a mission to speak the protein language fluently 💂♂️🫡
Kresten Lindorff-Lars.. @LindorffLarsen
13K Followers 2K Following Protein and coffee lover, father of two, professor of biophysics and sudo scientist at the #LinderstrømLang Centre for Protein Science 🇩🇰 Same usr @ 🦋
Aude Bernheim @AudeBer
5K Followers 799 Following Microbial immunity, genetics, genomics, evolution @institutpasteur. Group leader @Mdmlab_paris Activist for more inclusive sciences
Liz Kellogg ❄️�.. @kellogg_liz
4K Followers 1K Following Assoc. Member @St Jude Structural Biology, Pew Biomed. Scholar 2021, Margaret Dayhoff Oakley Awardee 2023, Co-host of #ThePlungePodcast w/@mcianfro & @mimi1inh
Niko McCarty 🧫 @NikoMcCarty
23K Followers 865 Following Writing and editing stories about scientific progress, especially in biology. Founding Editor @AsimovPress Head of Creative @AsimovBio
Patrick Hsu @pdhsu
30K Followers 3K Following co-founder @ArcInstitute, @BerkeleyBioE professor | researcher & investor in genome editing, biotech, AI | 🇨🇦 @harvard @broadinstitute @editasmed, Fast Grants
Daan C. Swarts @DCSwarts
1K Followers 637 Following Group leader at Wageningen University & Research, NL | Prokaryotic immune systems | Views are my own
Ben Kleinstiver @BKleinstiver
4K Followers 671 Following Associate Professor @CGM_MGH at @MGH_RI & @HarvardMed Genome editing / Protein eng. / Molecular medicine 🇨🇦🧬 Kayden-Lambert MGH Research Scholar '23-28
David Juergens @DaveJuergens
3K Followers 2K Following Machine learning for molecular design. PhD student @UWMolES @UWproteindesign. B.S. @UWChemE
Alexander Harms @AHarms485
8K Followers 5K Following Bacteriophages, dormant bacteria, and bacterial immunity. Assistant Professor of Molecular Phage Biology at ETH Zurich.
Omar Abudayyeh @omarabudayyeh
7K Followers 2K Following McGovern Fellow @mcgovernmit by way of @broadinstitute | @harvardmed |@MIT Molecular tool lab. Co-founder @Sherlock_bio & https://t.co/GnLoSlRvsZ & https://t.co/ElMMNGf8bL
Basem Al-Shayeb, Ph.D.. @themicrobeguy
3K Followers 581 Following Co-Founder @ Amber Bio ⌬ PhD from @Doudna_lab & BanfieldLab @UCBerkeley🌋🦠👨💻🧬⌬Science #ForbesUnder30 ⌬ formerly @NASAAmes, 🇪🇬🇺🇸 ⌬ #crispr #phage #borgs
Karthik Ramanadane @RamanadaneK
405 Followers 704 Following 🇮🇹 @snsf_ch Postdoc Coscia lab 🇨🇭 @DutzlerLab graduated #Biochemistry #MembraneProteins #StructuralBiology Husband and cat dad 🇫🇷🇮🇳➡️🇺🇸➡️🇨🇭➡️🇮🇹
Francisco J. Enguita @fenguita
2K Followers 3K Following Assistant Professor, FMUL, University of Lisbon, Portugal Senior Researcher, iMM, FMUL, University of Lisbon, Portugal Molecular artist Instagram: paco.enguita
Jack Bravo @jpkbravo
932 Followers 713 Following Incoming Assistant Professor at IST Austria | Currently postdoc at University of Texas at Austin | Studying nucleoprotein complexes one particle at a time
Jonathan Gootenberg @jgooten
4K Followers 2K Following Pull apart the double helix like a wishbone || Ars longa, tweeta brevis
MichaelSchmitz @Michael__Sch
194 Followers 208 Following
Owen Howell @ohowell123
121 Followers 132 Following ML phd student | applied mathematician | 🇺🇸 BU | University of Chicago | Northeastern University
Unmesh|উন্ম�.. @UchowUnmesh
433 Followers 5K Following Ph.D. @NISER #md #smd #statmech #computationalbiophysics
Nebula Ionis @IonisNebula
35 Followers 278 Following
Clayton @cthorrez
1K Followers 1K Following LLM applied scientist by day, esports data scientist for fun. Working on rating systems and benchmarks for esports Creator of the riix package for ratings
Margarita Parada-Kusz @MParada_Kusz
877 Followers 1K Following Postdoc studying neuroimmunology of bacterial infections in #zebrafish. Feminism, nature, science, and nerdy jokes.
Pierpaolo Morgante (p.. @PierMorgante
328 Followers 1K Following Editor at @IOPPublishing (@MLSTjournal). Retired #compchem-ist @AutschbachLab and @peverati_res. #DFT #machinelearning On Mastodon and BlueSky! He/His
Samuel Hume @SamuelBHume
3K Followers 6K Following Scientist, medic. PhD from @UniofOxford, Fellow of @FoulkesFdn. Writing about new innovations in biology and medicine.
Galen Ptáček @cataphylaxis
166 Followers 2K Following (he/him) nothing to see here. will post about research when i have results, hopefully in 2024
Michael Svaton @svatonm
45 Followers 182 Following
Taco Cohen @TacoCohen
21K Followers 3K Following Deep learner at FAIR. Into codegen, equivariance, generative models. Spent time at Qualcomm, Scyfer (acquired), UvA, Deepmind, OpenAI.
DailyHealthcareAI @aipulserx
71 Followers 411 Following 🚀 Daily AI healthcare updates compiled from 100+ sources (and growing)
Paul Humphries @PaulHumpa
3K Followers 5K Following Scientist with expertise in medicinal chemistry, phenotypic drug discovery, GPCRs, circadian rhythms & CNS/cancer/metabolic diseases. Stanford IMA & ChEM-H
Xiaohan Li @xlichem
530 Followers 1K Following Postdoc in Miller lab @UoDLifeSciences. Previous: #MSCAFellow @MRC_LMB; PhD @YaleChem; CCME @PKU1898 IDP/IDRs, membrane traffic, protein dynamics, evolution.
Shreyan Datta @Shreyan11_11
65 Followers 513 Following IIT BHU, Biochemistry, Biophysics, Structural and Molecular Biology, RA at BMSIS YSP'23 DAAD WISE at TU Dresden
Cesar Ponce-Diego @cesar_ponce12
86 Followers 312 Following Master student working with intrinsically disordered proteins using artificial intelligence algorithms.
Yasin Kaya @kaya_yasinn
663 Followers 940 Following PhD at @mpipz_cologne Hancock Lab • Genome Scientist 🧬🌱• Bioinformatics & Algorithms 👨🏼💻 •••〽️𓂉𓁐𓃠
Somayè @Somayeh8968
119 Followers 441 Following
いのうえ @inoue0426
1K Followers 880 Following @UMNews CS PhD Candidate/Research Fellow at BioMed Institute, scRNAとか創薬とか. INTJ. EN: @inoue_0426
idol2vec @deugledeugle
137 Followers 2K Following
Saudopooth @saudopooth81527
5 Followers 486 Following
Teightesh @TeighteshEvUg
2 Followers 347 Following
Selah Nader @selah_na
38 Followers 5K Following
Alejandro Ortiz Rodr�.. @AlejandroBioMol
92 Followers 632 Following CRISPR scientist in process.🧬👨🔬
Sandie Fregia @FregiaSand13106
79 Followers 5K Following
Lisa Tierce @lisa_tierc10088
60 Followers 5K Following
Gwynne Micah Ritua @gwynneritua
24 Followers 135 Following Beauty and simplicity of bacterial systems PhD student Department of Biochemistry @UZH_en | Jinek Lab Former member of Synthetic Microbiology Lab @UPD_NIMBB
Zibo Chen @ZiboChen
1K Followers 277 Following Assistant professor @westlake_uni. Protein design and synthetic biology. Pilot (PPL, IR).
Anshuman Jaysingh @AnshumanJS
50 Followers 424 Following PhD Student Washington University in St Louis
Eloisa Gurwell @EloisaGurwe
40 Followers 5K Following
Edvardas Golovinas @dykaragis
0 Followers 119 Following
Annalisa Lafay @la_annali
0 Followers 186 Following
Madison (Maddi) Strin.. @madisonstrine
1K Followers 2K Following YSM Science Fellow studying fetal/neonatal T cell-epithelial crosstalk in the lab of @LizaKonnikova | @YaleIBIO @WilenLab PhD ‘23 | @gettysburg ‘18 | she/her
Xiuqiang(Stephen) Che.. @codechenx
225 Followers 1K Following PhD in Bioinformatics @MBD_lab and @microverse_exc , Leibniz Institute for Natural Product Research and Infection Biology - Hans Knöll Institute (HKI)
Saeedeh Asgarbeik @sa47008912
143 Followers 843 Following Ph.D. researcher working on Pancreatitis at the University Medicine of Greifswald. @RTG2719_PRO. #Genetics#Gene therapy#Diabetes#Pancreatitis
TheraJane @zPl1YAC5S407P7
1 Followers 365 Following
حسين @OtuHussain
178 Followers 105 Following
Said SALHI @salhiSAId9
314 Followers 5K Following
Yin-Hong Cao @caoyinhong
147 Followers 1K Following Postdoc in Jiayang Li Lab, Institute of Genetics and Developmental Biology, CAS. Focus on the Multi-omics of dandelions & rice🌱🌾Recruiting Top-Tier Talents👇
Brian Naughton @btnaughton
2K Followers 2K Following genetics/data/programming. ex-Hexagon ex-Stanford ex-23andMe ex-TCD https://t.co/77VRsi7znN 🇮🇪
Stephen Nayfach @stephen_nayfach
2 Followers 18 Following
Sergey Ovchinnikov @sokrypton
12K Followers 3K Following Scientist, Assistant Professor @MITBiology, #FirstGen, ProteinBERTologist, 🇺🇦
David R. Liu @davidrliu
64K Followers 59 Following Professor at Harvard, Broad Institute, & HHMI. Our lab integrates chemistry & evolution to illuminate biology & enable new therapeutics. IG/Threads: @davidrliu1
Martin Jinek @MartinJinek
4K Followers 347 Following Biochemist, structural biologist, CRISPR enthusiast
Doudna Lab @doudna_lab
72K Followers 88 Following News from Jennifer Doudna's lab at @UCBerkeley @igisci. Tweets from lab members and not Jennifer Doudna unless signed JD. Tweets represent personal views only.
Kevin K. Yang 楊凱�.. @KevinKaichuang
16K Followers 5K Following Senior Researcher in BioML @MSFTResearch (@MSRNE). He/him/他. 🇹🇼
Noelia Ferruz @ferruz_noelia
4K Followers 605 Following Group leader at @IBMB_CSIC in Barcelona. On a mission to speak the protein language fluently 💂♂️🫡
cryoEM Papers @cryoEM_Papers
13K Followers 0 Following I'm a bot that surveys the cryoEM literature for you! Operated by @fredericpoitev1 & @CorneliusGati, adapted from PaperBots twitter app developed by @fxcoudert
Brady Johnston @bradyajohnston
15K Followers 2K Following structural biologist, scientific animator, creator of #MolecularNodes, he/him #rstats #b3d mstd: [email protected] bsky: @bradyajohnston.bsky.social
Kresten Lindorff-Lars.. @LindorffLarsen
13K Followers 2K Following Protein and coffee lover, father of two, professor of biophysics and sudo scientist at the #LinderstrømLang Centre for Protein Science 🇩🇰 Same usr @ 🦋
Aude Bernheim @AudeBer
5K Followers 799 Following Microbial immunity, genetics, genomics, evolution @institutpasteur. Group leader @Mdmlab_paris Activist for more inclusive sciences
Nature Biotechnology @NatureBiotech
302K Followers 2K Following Publishing the very best of biotech science and business. Part of @SpringerNature and @NaturePortfolio. On Facebook (natbiotechnol) & IG (nature.biotechnology)
Liz Kellogg ❄️�.. @kellogg_liz
4K Followers 1K Following Assoc. Member @St Jude Structural Biology, Pew Biomed. Scholar 2021, Margaret Dayhoff Oakley Awardee 2023, Co-host of #ThePlungePodcast w/@mcianfro & @mimi1inh
Fyodor Urnov @UrnovFyodor
15K Followers 533 Following Gene editor + Professor of Molecular Therapeutics @berkeleyMCB + Director of @igisci @danahercorp Beacon for CRISPR Cures.
Joseph Watson @_JosephWatson
3K Followers 108 Following Co-Founder @ Xaira Therapeutics Former Baker Lab PostDoc at @UWproteindesign. Interested in generative modelling for molecular design. Views my own.
Patrick Hsu @pdhsu
30K Followers 3K Following co-founder @ArcInstitute, @BerkeleyBioE professor | researcher & investor in genome editing, biotech, AI | 🇨🇦 @harvard @broadinstitute @editasmed, Fast Grants
Adriano Aguzzi @AdrianoAguzzi
22K Followers 1K Following Physician, Prof of Neuropathology, mountain biker, prion researcher, https://t.co/p2LFL67xFj founder, Editor of @SwissMedWkly. Posts are orthogonal to my employer's.
Daan C. Swarts @DCSwarts
1K Followers 637 Following Group leader at Wageningen University & Research, NL | Prokaryotic immune systems | Views are my own
Jacob Corn @jcornlab
5K Followers 508 Following Genome editing, functional genomics, and cells figuring out how to eat themselves without dying. Professor of Genome Biology at ETH Zürich.
Ben Kleinstiver @BKleinstiver
4K Followers 671 Following Associate Professor @CGM_MGH at @MGH_RI & @HarvardMed Genome editing / Protein eng. / Molecular medicine 🇨🇦🧬 Kayden-Lambert MGH Research Scholar '23-28
Anshul Kundaje (anshu.. @anshulkundaje
22K Followers 2K Following Genomics, Machine Learning, Statistics, Big Data and Football (Soccer, GGMU). Post: @anshulkundaje, Threads: anshulkundaje
Julio Saez-Rodriguez @JulioSaezRod
2K Followers 381 Following Computational Biologist, Head of research @emblebi, part-time @UniHeidelberg, codirector @DR_E_A_M challenges. Low-activity account, mostly retweets @saezlab
conti_lab @LabConti
2K Followers 38 Following We use structural biology and biochemistry to study protein complexes involved in RNA metabolism @MPI_Biochem. Tweets by Elena signed EC.
Aadyot Bhatnagar @AadyotB
51 Followers 54 Following ML Scientist at Profluent Bio. Previously at Salesforce. Working on sequence generation problems for protein engineering.
Luca Naef @NaefLuca
1K Followers 1K Following Co-Founder & CTO, @vant_ai Forbes 30u30 but won't go to jail | prev. ETH Zurich Stanford McKinsey ML for Induced Proximity Drug Discovery
Rui Zhang @RuiZhangWUSTL
3K Followers 2K Following Associate Professor of Biochemistry at @WUSTLmed | #CryoEM studies of native #microtubules and #cilia related complexes lab website: https://t.co/21ePUkNRNe
Yang Hsia @yhsia_ipd
86 Followers 75 Following Research scientist in the Baker Lab at the @UWproteindesign.
Karly Pilkboys @karly_pilkboys
25 Followers 7 Following Two radio fellas airchecking the Ricky Gervais XFM show. It's a shambles.
Marcin J. Suskiewicz @MSuskiewicz
1K Followers 4K Following Structural biologist and biochemist. CNRS researcher at CBM Orléans. Interested in protein modifications & interactions. Also husband, dad of 2, friend, ☧.
Aanchal @Origichals
75 Followers 114 Following Human | Daughter | Sibling | Friend | PhD student in post translational mechanisms in DNA repair using AlphaFold and structural biology approach @CNRS. She/her.
eliseo papa @elipapa
539 Followers 2K Following research engineering @deepmind science | previously #graph #ML lead at @AstraZeneca, @biogen @targetvalidate | medicine @ImperialMed, engineering @mit_hst
Michael Schwimmer @MichaelSchwimm1
369 Followers 624 Following PhD Student with @CamZoology. Interested in nervous system development and the evolution of the vertebrate brain.//animations at @michaelschwimmer_art on insta
Matti Pronker @MFPronker
798 Followers 891 Following Postdoc in the Snijder lab @UniUtrecht, MRC-LMB alumnus, EMBO LTF and Veni awardee - structural biology, #cryoEM ❄️🔬, #crystallography 🩻💎 - views are my own
Ye Che @ye_che
1K Followers 2K Following Senior Director, Head of US Structural Biology & Vx Biochemistry @GSK | ABRYSVO, COMIRNATY, LITFULO | Medicine & Vaccine Design
Patrick Schwab @schwabpa
5K Followers 2K Following Senior Director Machine Learning & AI @GSK. Prev: ML @Roche, PhD @ETH. ML for Drug Discovery and Health.
Michie Lab @kmichie13
369 Followers 524 Following Dr Kate Michie-Structural Biologist- UNSW, Sydney Australia. Opinions my own.
The Elder Scrolls @ElderScrolls
961K Followers 104 Following Welcome to the home of The Elder Scrolls on Twitter.
Dr. Ivana Duic @IvanaDuic
930 Followers 1K Following PhD, Kyoto University alumna, 🧬🦠 Innate immunity • SciArt 🎨 • Scientist at an RNA-targeted drug discovery company 💁🏻♀️All views are my own
Peter Cameron @PeterCameron4
78 Followers 294 Following
GERG @GregDodge9
634 Followers 1K Following BS RIT | PhD UMich - Janet Smith Lab | Postdoc MIT - Imperiali & Kiessling Labs | Ruth L. Kirschstein Fellow Membrane proteins, glycobiology, structural biology
David Dorn @ProfDavidDorn
2K Followers 212 Following Professor of Economics, University of Zurich @econ_uzh @urpp_equality
Institute of Pharmaco.. @UZH_IPT
489 Followers 518 Following Official account of the Institute of Pharmacology and Toxicology - University of Zurich @UZH_en.
Yanik Weber @YanikWeber
49 Followers 153 Following A biotech enthusiast with a knack for gene editing, exploring the realms of synthetic, chemical biology and directed evolution.
Project Deniz @projdeniz
19K Followers 59 Following "Project Deniz" an upcoming indie game harmonizing intense third-person shooting, and an engaging story.
Yehlin Cho @ChoYehlin
84 Followers 316 Following PhD Student @MIT in the @ https://t.co/bAfGxEsiSt https://t.co/nM4y24eFqa
Jude @Juli_Bla
637 Followers 833 Following Genome Engineering Innovation Lead @Basecamp_res | ex-@TwistBioscience | Functional genomics aficionado with novel nucleases up my sleeve.
Gabriel Monteiro da S.. @GMondaSilva
502 Followers 731 Following Blavatnik Family Fellow and PhD Candidate in the Rubenstein Group, @BrownUniversity Computational biophysicist, amateur artist, builds useless robots He/him
Collins Lab @CollinsRNPLab
199 Followers 165 Following Retrotransposons, nucleolar biology, and more! @berkeleyMCB (account run by trainees)
Valentyn Bezshapkin �.. @valentynbez
603 Followers 1K Following MD, PhDing @SunagawaLab in @ETH_en. Associated @ETH_AI_Center. Ex @Tomasz_Lab. Metagenomes, proteins & ML 🦠🧬💻
Matt Durrant #hiring @mgdurrant
861 Followers 462 Following Mobile genetic element whisperer. Computational Biologist @arcinstitute. Genetics PhD @StanfordMed I post about programmable recombinases and genome design.
Pengbiao Xu @PengbiaoX
152 Followers 224 Following Working on innate immunity and structural biology. @EMBO Postdoc scholar @EPFL Ph.D. @TAMU @TAMUBCBP
Ilya Osterman @IlyaOsterman
88 Followers 73 Following Senior Research Associate, @SorekLab, @WeizmannScience, the phage-host arms-race
Oana Pelea @OanaPelea
426 Followers 2K Following Postdoctoral fellow | CRISPR technology development | Jinek Lab | University of Zurich | Synthetic Biology PhD | University of Oxford
chentongwang @WChentong
49 Followers 63 Following
Rimon Parves @ParvesRimon
28 Followers 173 Following Revealing the allosteric mechanism of DNA opening and transcription initiation using Cryo-EM.
Taekjip Ha @taekjip
6K Followers 556 Following Biophysicist. Howard Hughes Medical Institute. Harvard Medical School. Boston Children’s Hospital. Father of three dragons. Occasional manuscript reviewer.
Andersen Lab @AndersenBioLab
267 Followers 192 Following
Kevin Corbett @_KevinCorbett
1K Followers 24 Following Biochemist and structural biologist @UCSanDiego. Fan of @UCSDBMS and @UCSDChemBiochem. Also find me @[email protected]
Alex Morehead (何聪.. @MoreheadAlex
613 Followers 1K Following #MachineLearning & #CompBio PhD @Mizzou. Prev: Research Intern @ Profluent & Absci. Interested in #GeometricDeepLearning and #GenerativeModels.
Adam R. Kosiorek @neu.. @arkosiorek
8K Followers 547 Following Research Scientist at DeepMind. ML generalist working on generative models. Was at below 50% capacity due to #LongCOVID, now *almost* recovered.
Favorite movie lines @TitlesInMedia
155K Followers 0 Following For when the title is said by a character in films, games or TV.
Tim Grant @GrantCryoEMLab
1K Followers 209 Following cryo-EM structures and methods development, cisTEM development
Balwina Koopal @BalwinaK
52 Followers 159 Following
Srajan Kapoor @kapoorsrajan
87 Followers 385 Following PhD from @Dr_KrishanGopal @CSIR_IMTECH Postdoc @Vecchiology @Jacobs_Med_UB@arneelof They still have 4 blocks that uses an MSA (which has and outer-product-mean, which is essentially computing a covariance matrix). My guess is that they found you didn't need 48 blocks processing the MSA, 4 was enough to extract coevolution signal, the rest can work on single rep
These two quotes are at odds with each other: “It’s going to democratize structural-biology research" and “We have to strike a balance between making sure that this is accessible and ... not compromising Isomorphic’s ability to pursue commercial drug discovery" 🧐🤔
The latest version of AlphaFold models how proteins interact with other molecules — but DeepMind restricts access to the tool go.nature.com/4dsMcYP
@klausenhauser Unfortunately, many papers have online servers without disclosing the code running them. In most cases, the servers are dead after 5 years, and the paper is completely irrelevant.
@DawidZyla This would’ve not be allowed if they weren’t a massive giant like Google
AlphaFold3 is insane. MutS protein (green) recognizes base mismatches in DNA (gray), after which it slides off to find MutL matchmaker protein (blue), which positions and activates MutH nuclease (pink) to nick a hemimethylated GATC sequence (red) to activate removal and repair of…
Like this post if you want to know whether AlphaFold3 correctly recapitulated sequence and methyl group binding specificity of MutH, and whether I should use my last job today for adding the missing ion 😂
@dr_alphalyrae @anshulkundaje @Nature Nature is a for-profit entity. They also have a policy that requires sharing code as a condition of publication. That policy is selectively applied even when reviewers point it out, which leads to this frustration.
In my review, I made a list of much science that happened bc AlphaFold2 code was released. I suggested that so much science will not happen if AlphaFold3 code is not released (or not with AF3 itself). We've made ~100k models with AF2 code. How could we use a server for all that?
Demis -- I think AlphaFold3 is really exciting. As Reviewer #3, I got great results from the server. I tried hard to get @Nature to urge you to release the code but was unsuccessful. I did not get it for re-review so I don't know if you responded. So why no code? @GoogleDeepMind
Thrilled to announce AlphaFold 3 which can predict the structures and interactions of nearly all of life’s molecules with state-of-the-art accuracy including proteins, DNA and RNA. Biology is a complex dynamical system so modeling interactions is crucial blog.google/technology/ai/…
Four jobs more and I go check what kids are doing upstairs
AlphaFold3 is out with improvements on structural models that include DNA/RNA and small molecules. Unfortunately, there is no code, no binary to run at scale and only a limited webserver. Why even publish? nature.com/articles/s4158…
Sad that code is not released but I am testing the server and it is not bad and super fast (7 minutes for 1700 residues of a protein-RNA complex).
Thrilled to announce AlphaFold 3 which can predict the structures and interactions of nearly all of life’s molecules with state-of-the-art accuracy including proteins, DNA and RNA. Biology is a complex dynamical system so modeling interactions is crucial blog.google/technology/ai/…
Don’t forget that most important part…it was built using public data 🥲
Oh nice! @Nature publishes another amazing advertisement for an amazing product masquerading as a scientific publication with no code, no model & a webserver that allows 10 queries at a time from a billion dollar company. But it's "gold" open access folks! Rejoice!
I think the license of PDB should be changed, structural biologists deposit structures for free but have to pay to use the AI models that were trained on our data..
Although it is a very exciting development, it is sad to see that no code will be released, which would not be allowed for academic institutions @Nature. It was clear that weights will not be released (despite being trained purely on public data) but this I did not expect.
No weights = no actual usage. I hope they will release the weights and code so the in silico revolution can continue. Otherwise, it's just another paper without code.
AlphaFold3 launched today, now with prediction capabilities for RNA, DNA, ligands, and PTMs. Results look great. However, it feels more like a marketing strategy-no code shared, using the biosecurity excuse. Hoping for an open-source version soon. Looking at you @MoAlQuraishi :)
@thesteinegger @MoAlQuraishi Crazy to think that in the old days, some papers were legally mandated to call themselves advertisements, and yet here there's no such requirement
Academics need to pay for access, generate data for a private company to make billions and we get stuck using their server. Public money making rich people richer
Although it is a very exciting development, it is sad to see that no code will be released, which would not be allowed for academic institutions @Nature. It was clear that weights will not be released (despite being trained purely on public data) but this I did not expect.
AlphaFold3論文のRef: 14にワシのツイートが入ってる┌(┌ ºωº )┐ﾁｰﾝ
I’ve been all day eagerly waiting to predict a few ligand binding poses with Alphafold3 but only a few ligands are available 😢 github.com/google-deepmin… Still amazing to see what they’re capable of 🤯and confirms the suspicions that AF3 would use diffusion
Oh I have made a big mistake. It is 10 searches per day, not even at a time. Thank you thank you billion dollar company overlords!
Oh nice! @Nature publishes another amazing advertisement for an amazing product masquerading as a scientific publication with no code, no model & a webserver that allows 10 queries at a time from a billion dollar company. But it's "gold" open access folks! Rejoice!
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