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Tanmoy Sanyal @hiddenvariable2

Protein design @Amgen. Previously, @novonordisk, @salilab_ucsf, @UCSBCHE, @IITKgp. tanmoy7989.github.io San Francisco Bay Area, CA Joined June 2016
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Tanmoy Sanyal retweeted
DdelAlamo Profile Picture

Diego del Alamo @DdelAlamo

12 months ago

Retraining PLMs with newly deposited sequences doesn't guarantee better performance. Authors trained PLMs on each copy of UniRef100 from 2011 to 2024; the largest performance boost (2021->2022) coincided with the removal of unusually large number of invalid sequences from UniRef

BiologyAIDaily Profile Picture

Biology+AI Daily @BiologyAIDaily

12 months ago

Retraining PLMs with newly deposited sequences doesn't guarantee better performance. Authors trained PLMs on each copy of UniRef100 from 2011 to 2024; the largest performance boost (2021->2022) coincided with the removal of unusually large number of invalid sequences from UniRef https://t.co/eEb6u0uX66

Tanmoy Sanyal retweeted
rohitsingh8080 Profile Picture

Rohit Singh @rohitsingh8080

12 months ago

Let me tell you a story. It'll end up at the current tech-bio and protein design scene. But the story starts about 25 years earlier. Did you know that, commercially, the human genome project precipitated the end and not the start of a genomics boom? 1/

Tanmoy Sanyal retweeted
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Ben Kellman bkell1123.bsky.social @bkell1123

a year ago

1/5 Today, I’m sharing 7yrs of work. I believe we discovered a comprehensive mapping from protein structure to glycan structure, a genetic encoding for specific glycans, and a new paradigm in extracellular biology. biorxiv.org/content/10.110… #Glycotime

Tanmoy Sanyal retweeted
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Olexandr Isayev 🇺🇦🇺🇸 @olexandr

a year ago

Editors rant: how many more GNN or message-passing architectures do we *really* need to score/predict protein-ligand interactions? A new one appears every day!!! 🤯#compchem

Tanmoy Sanyal retweeted
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andrew blevins @Andrewdblevins

a year ago

Working on ML for Drug Discovery I have been frustrated with the size and/or quality of publicly available datasets to train and benchmark models with, so when my co-founder and I started our company we swore we would open-source some data as quickly as possible.

Tanmoy Sanyal retweeted
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Shruthi Viswanath @shruthiLab

2 years ago

arxiv.org/abs/2401.17894 We wrote a review on recent developments in integrative modeling and frontiers in the field for a Springer Mol Bio Handbook. Comments are appreciated! Deep work by co-first authors @s_arvindekar @KartikMajila

Tanmoy Sanyal retweeted
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Chris Bakke @ChrisJBakke

2 years ago

The sad reality is that most people don't have what it takes to work in tech: Up at 4am. Post a pic of my new Eight Sleep in the group chat for sweet, sweet engagement. Hit the gym. Crush 8 jumping jacks. 35 minute cold plunge. Rip a My First Million episode at 2x speed.…

Tanmoy Sanyal retweeted
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Krishnan @cvkrishnan

2 years ago

WAIT!! WHAT?!!

Tanmoy Sanyal retweeted
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India Research Watch (IRW) @IRWatchdog

2 years ago

𝐈𝐧𝐝𝐢𝐚𝐧 𝐑𝐞𝐬𝐞𝐚𝐫𝐜𝐡 𝐂𝐫𝐢𝐬𝐢𝐬 - 𝐍𝐨𝐭 𝐣𝐮𝐬𝐭 𝐚 𝐒𝐦𝐨𝐤𝐢𝐧𝐠 𝐆𝐮𝐧 𝐛𝐮𝐭 𝐚 𝐃𝐮𝐦𝐩𝐬𝐭𝐞𝐫 𝐅𝐢𝐫𝐞 If you had any doubts about Indian Research being in a deep crisis, this graph should definitively lay them to rest. (1/N) 🧵 #IndiaResearchCrisis

Tanmoy Sanyal retweeted
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ISRO @isro

2 years ago

Chandrayaan-3 Mission: 'India🇮🇳, I reached my destination and you too!' : Chandrayaan-3 Chandrayaan-3 has successfully soft-landed on the moon 🌖!. Congratulations, India🇮🇳! #Chandrayaan_3 #Ch3

hiddenvariable2 Profile Picture

Tanmoy Sanyal @hiddenvariable2

2 years ago

In 2008 October, I was back from college for a weekend visit to my parents, when the Chandrayaan-1 mission happened. 15 years later life comes full circle: my parents are visiting me on their vacation when Chandrayaan-3 soft-lands an unmanned rover on the moon!

hiddenvariable2 Profile Picture

Tanmoy Sanyal @hiddenvariable2

2 years ago

Excited to have nearly the entire integrative structural modeling community in one place: tremendous effort by @shruthiLab! Also, I am teaching a brief workshop on writing Python-based custom restraints within the Integrative Modeling Platform (IMP), please attend if interested.

shruthiLab Profile Picture

Shruthi Viswanath @shruthiLab

2 years ago

Excited to have nearly the entire integrative structural modeling community in one place: tremendous effort by @shruthiLab! Also, I am teaching a brief workshop on writing Python-based custom restraints within the Integrative Modeling Platform (IMP), please attend if interested.

Tanmoy Sanyal retweeted
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Bojan Tunguz @tunguz

2 years ago

I wonder what does it feel like to be a normie and work in a field where you don’t have to upskill every couple of hours.

Tanmoy Sanyal retweeted
shruthiLab Profile Picture

Shruthi Viswanath @shruthiLab

2 years ago

Register by this week for conference on Macromolecular assemblies @IISERPune and workshop on integrative modeling with @salilab_ucsf bit.ly/462MmlN

Tanmoy Sanyal retweeted
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Ben Shor @ben_shor

2 years ago

1/8 Excited to introduce CombFold - an algorithm for predicting large multi-protein complexes using the combinatorial and hierarchical assembly of #AlphaFold models. @DinaSchneidman biorxiv.org/content/10.110…

Tanmoy Sanyal retweeted
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Krishnaswamy Lab @KrishnaswamyLab

2 years ago

Some perspective for scientists who may be asked to review computational methods: Computational methods are indeed innovated by taking existing mathematical and algorithmic atoms and putting them together in a novel way. Second, small changes in the steps can have a large…

Tanmoy Sanyal retweeted
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Dmitry Kobak @hippopedoid

2 years ago

Really excited to present new work by @ritagonmar: we visualized the entire PubMed library, 21 million biomedical and life science papers, and learned a lot about -- THE LANDSCAPE OF BIOMEDICAL RESEARCH biorxiv.org/content/10.110… Joint work with @CellTypist and @benmschmidt. 1/n

Tanmoy Sanyal retweeted
BenBlaiszik Profile Picture

Ben Blaiszik @BenBlaiszik

2 years ago

We wrapped up the first LLM hackathon for applications in materials and chemistry last week. The results to me were astounding. We are at the point now where some tasks that took years can now be completed in days. Here is a list of the fantastic submissions!

Tanmoy Sanyal retweeted
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Dr. Holly Walters @Manigarm

2 years ago

I'm serious. STEM without the Arts, Social Sciences, and Humanities will produce more "innovative" tech bros who giddily reinvent rent, roommates, taxes, and now...roller skates. With complete, straight-faced, sincerity. This is a problem. And I have a list (So, thread 🧵)

TheRundownAI Profile Picture

The Rundown AI @TheRundownAI

2 years ago

I'm serious. STEM without the Arts, Social Sciences, and Humanities will produce more "innovative" tech bros who giddily reinvent rent, roommates, taxes, and now...roller skates. With complete, straight-faced, sincerity. This is a problem. And I have a list (So, thread 🧵)

Tanmoy Sanyal retweeted
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Tina Termini @CterminiPhD

3 years ago

It’s time to peel back the curtains of the struggles of a #NewPI trying to find her way. I was invited to interview for an award that was a great match for my research. Here is me cheesing before the interview… Little did I know how quickly would change... [long] 🧵

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