Ankit Gupta
@GuptaAnkitV
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334
head of ai @ginkgo . co-founder of @reverielabs (acquired). @harvard CS. @ycombinator w18.
Cambridge, MA
Joined November 2015
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Super excited to announce Reverie Labs’s acquisition by
@Ginkgo
Bioworks!!
It’s been an incredible 6 year adventure of building a pharma company at the intersection of AI and biology, and I could not be more excited to continue that vision at Ginkgo.
1/ ( 🧵👇!!)
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Exciting news today - Reverie has raised a $25M Series A! I'm immensely grateful and proud of the incredible team that got us here, and so excited for what lies ahead in our journey to cure diseases with computation.
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Super pumped to be starting this new phase
@reverielabs
with an awesome partner! Many thanks to the folks at Roche and Genentech for trusting us with these programs, and I’m truly excited to start this collaboration!
Reverie Labs enters multi-target collaboration agreement with Roche.
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My team at
@Ginkgo
has been building large scale biological foundation models and partnering with biotechs/pharma companies on data generation for AI, so I'm excited to meet the Bio x ML community from across the world.
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We're hiring at Reverie Labs! If you have a machine learning background and are looking to join a team of fellow ML researchers/engineers to build the future of drug discovery, I'd love to chat!
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Super excited for our unique team of engineers and chemists to partner with organizations like
@Roche
and
@Genentech
as we work to fight disease with computation! Check out
@ReverieLabs
's profile in
@Forbes
for more how our focus on kinases is a perfect match for computation.
We’re so excited to partner with incredible companies like
@Roche
as we execute our mission of using computation to fight disease (and to finally announce our seed round)!
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Getting rid of H1B visas is stupid, racist, and anti-American, and if you support this you are stupid, racist, and anti-American. The only thing this will accomplish is move a massive number of American jobs overseas. China, India, and Europe just got another reason to laugh.
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Finally following through on one of my resolutions for the year and bringing back my old blog. First, a light request to ask open source ML developers to release their models in containers, and a user guide to do so with an example in protein folding:
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So proud of the one and only
@LucyLNam
!!! Boston’s got an incredible surgeon joining the ranks!
It's finally here—
#MatchDay
! We are absolutely thrilled to welcome the 2021
#MGHsurgery
interns 🎉 For all that you've accomplished so far and for all that is yet to come, congratulations! We look forward to welcoming you on campus very soon.
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Reverie is launching an engineering blog where we are sharing some of the tools and methods we use to power our therapeutics programs. Check it out and let me know what you think!
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Wrote a post summarizing the differences between two v interesting ICLR submissions doing unsupervised neural machine translation with only monolingual corpora. Check it out at !
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We're hiring again at
@ReverieLabs
! We're looking for a motivated Molecular Data Scientist to join us at the intersection of chemistry and computer science and extract insights from some of the largest chemistry datasets in the world.
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Super grateful for the recognition and for all the great people I get to work with at
@reverielabs
!! 🥂🥂🥂
We are very excited to announce that our co-founders
@jonahkallenbach
and
@GuptaAnkitV
have been named to the 2023 Forbes 30 under 30 list for Healthcare!
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Just co-published a post with the AWS blog on how
@reverielabs
uses Docker to power our ML training and inference stack. Thanks to the
@awscloud
team for the help and let me know what you think!
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Very excited to share a new post on the
@ReverieLabs
blog. In it, Sophia describes how we built a central repository to store x-ray crystallography data to support hybrid workflows in computational chemistry and machine learning. Also, we're hiring!
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Reverie is now hiring front-end engineers! If you want to use Javascript to help cure cancer, please reach out!
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I'll be in SF next week for
@NVIDIAGTC
. if you're around and want to talk foundation models / biology, dms are open!!
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A natural representation for molecules with atoms as nodes, bonds as edges. Combine this with the ability to do massive-scale pre-training and very fast inference, and things start to work at the scale needed for small molecule drug discovery (running inference on 10^9 cmpds)
What's the coolest/clearest application of graph neural networks?
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4/ I’m incredibly pleased to be joining Ginkgo alongside Reverie’s AI team as Head of AI/ML Advancement and Senior Director of ML Research. I’ll be training big models, and working with pharma, compute, academic partners to make new discoveries and unlock new business.
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Such an honor to be on this podcast with
@anikagupta18
today! I know that ML for drug discovery probably isn’t what’s on everyone’s minds today, but do reach out if you have any thoughts or questions :)
Happy election day! In today's episode of The Data Pulse,
@GuptaAnkitV
, CTO of
@reverielabs
, talks about systematization as key to applying machine learning for small molecule drug discovery. 1/2
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6/ Thank you also to our investors, specially
@ycombinator
who first took a chance on us and always supported us, and eventually others including
@neo
,
@firstround
,
@WireframeVC
, and Ridgeback.
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2/ Ginkgo is building the rare biopharma platform that aims to level-up the entire industry. In doing so, they’ve built the engine — they call it the Foundry — to generate the data that’ll power the next generation of powerful AI models in biology.
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@chipro
Write the pseudocode for the major operations that nn.Linear/tf.matmul implement during forward/backward passes (in vector notation and then numpy). Pretty good signal for whether they actually understand backprop.
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5/ I want to thank so many people along the way — first and foremost: our incredible team, with whom I’ve had the utmost privilege of working. Most importantly, I want to thank my cofounder
@jonahkallenbach
, who has always seen eye to eye, and who I can’t wait to work with again.
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3/ I’m excited to see our machine learning technologies bring new state of the art models in protein and nucleic acid design. We’ll be training the next generation of foundation models for important tasks in biology.
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Full press release here:
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Oh and by the way, I'm hiring engineers (full stack, front-end, ML, data science, or anything in between)! Reach out if interested or apply at !
Super excited for our unique team of engineers and chemists to partner with organizations like
@Roche
and
@Genentech
as we work to fight disease with computation! Check out
@ReverieLabs
's profile in
@Forbes
for more how our focus on kinases is a perfect match for computation.
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Reverie Labs is hiring software engineers! Come join us to build the infra that powers the next generation of life-saving cures!
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We've got a new post on the Reverie Engineering Blog! Check out Stephen's work using asyncio to scale the ML inference workloads for our therapeutic programs at
@reverielabs
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Another exciting opening at
@ReverieLabs
! We're hiring a Senior/Staff Software Engineer to help us build our modern, internal web platform that powers our drug discovery programs. Please DM or apply if interested!
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10/ Can’t wait to build new things ahead. Catch me around Boston if you want to chat AI x Biology, or…. maybe see you at an upcoming ML conference or two. I'm about to have 100x more compute than before, so if you'd like to work together, reach out!
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If I’m understanding it right, the US Citizenship Act of 2021 would be game changer for STEM in American businesses - F1 OPT renewals until green card rather than H1B lottery is a critical (and obvious) step in the right direction for a labor force we desperately need
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We're hiring! Please reach out or apply at the link if interested!
Reverie Labs is hiring a computational chemist in Cambridge MA! At Reverie we put computation at the center of drug discovery, and you will be an essential part of that process. DM me or apply at:
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Can the two dudes commentating on this
@usopen
match shut up about how much female tennis players yell and talk about... idk... tennis? or better yet just not be there
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1/ This is great and all, but come on NPR did you have to pick a cover photo with a guy holding an Indian flag and not an American one? We're just as patriotic as anyone else - no need to make it seem like we care more about India or that it's unusual we don't.
Indian Americans — a small but possibly pivotal voting bloc — are overwhelmingly voting for Joe Biden this election, a new survey finds.
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Excited to share a little bit of what we've been working on!
Reverie Labs uses new machine learning algorithms to fix drug development bottlenecks by
@catherineshu
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@srush_nlp
Docker + Terraform are magic for this. you can write down all the config once and not have to think about it. Imo docker is ideal for demos so your users don’t need to install anything (except docker). Works well with GPUs nowadays
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Also want to give a special thanks to
@jrkelly
and
@AnnaMarieWagner
for their support. We met Jason through YC many years ago, and I'm thrilled to be working closely with them in this next chapter.
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7/ As any founder knows, at times this job is absolutely brutal. In those moments, so many peers — professional and personal — stepped up to keep me afloat. To other founders, if I can be a useful sounding board to whatever you’re dealing with, please reach out.
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An awesome new blog post by the inimitable
@ElanaPearl
! Follow along as she shows how we use UMAP to build valuable visualizations and preprocessing tools.
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ML debugging fun -
1. Loss function weirdly keeps converging to .6931
2. Notice that .6931 looks familiar.
3. 🤔
4. .6931 = log(2)
5. log(2) = softplus(0)
6. 😀!
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We're releasing our SMILES tokenizer and a full Colab walkthrough that uses the Transformer architecture on chemistry data using Tensor2Tensor. Let us know what you think!
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The single most useful thing the new administration can do on day 1 to help a growing business like
@reverielabs
: Give every person in the H1B lottery and green card queues from the last decade their work authorization.
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9/ Finally, my family. My parents encouraged me when I was unsure about leaving a more stable path, and I'm so grateful for them. Most of all, my wife
@LucyLNam
, who is my biggest supporter. The worst work days were tolerable and the best ones were glorious with her in my life.
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Merry Christmas!
he's makin a list
it's kept in plain text
an elf just got phished
you know what is next
santa claus has leaked 2.2 billion user's names, addresses, naughty/nice statuses, and the times they are asleep in their homes
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1/ Alphafold 3 is out! Awesome work, lots of interesting model-simplifying discoveries, and cool methods for distillation and fine-tuning.
That said, since many will probably try to match AF3 on their chosen benchmarks, id like to evaluate some of their shortcomings.
🧵👇
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"She was allowed to enter ... after the Mar-a-Lago security manager on duty verified that her last name matched the surname of a member of the club".
That's the verification process? So anyone with the last name Zhang can just waltz into Mar a Lago?
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For those biting their nails about Florida right now, this is a huge deal for the next one!!
Another big win: Amendment 4 in Florida has passed. More than 1 million people who were formally incarcerated will have their right to vote restored!
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How many levels of 25th amendment invocations are needed to make Fauci president?
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So proud of you! Your patients are very lucky 🩺
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lmao that I used to go to swim practice in middle school where Drake shot this:
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We're now hiring DevOps engineers - if you like building cloud infra and want to power drug discovery, please reach out!
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Literally what
Nadal. UNBELIEVABLE.
Tiger loves it as Rafa moves on to the US Open quarterfinal 🔥
(via
@usopen
)
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When I left Oregon for college I was surprised to find that everywhere else didn’t do the extremely obvious and secure thing we did at home: Vote by mail. Call your representatives now to make this happen.
Voting is the primary right by which our other rights are secured. Because of Covid-19, the 2020 election won't look like any other. Voting by mail must be an option for every American. States need to start on this now. Cost should be included in stimulus.
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anyone have a product for monetizing ML models? Say Iv got a proprietary LLM and a k8s cluster to run it on in my cloud provider. Looking for a service that handles signing up external users, creating API + keys, tracking token usage, billing customers, etc.
any recs?
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I’m a big supporter of a lot of your positions
@AOC
and I support the underlying desire here - to use pharma profits to fund pubic science - but this position needs a bit more nuance.
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8/ I've been blessed to have my community throughout this adventure. These are the ones that gave me company when I was down or checked in when a big moment arrived. ty especially to
@krutibvora
,
@rahulg603
,
@KristinTsuo
and many others who stubbornly refuse to get on twitter.
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New post up on my personal blog, this time some benchmarks in running
@PyTorch
's gpt-fast on a few-years-old consumer GPU. Fun stuff getting the model to fit on a tiny (by today's standards) GPU.
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yiiiiiikes
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Wow I'm jealous of my NYC friends only because jury duty in the Southern District of New York must be so entertaining these days
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@srush_nlp
This was a helpful read when I recently explored this re some of the code portability challenges
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And finally why does anyone invite Chuck Todd to literally anything?
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Very excited to share a new open position at
@ReverieLabs
! We're hiring a motivated project manager to enable our therapeutic programs to be more organized, efficient and effective. Come join us and work with a world-class team of chemists and engineers!
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yet another reminder that the American system for healthcare coverage is (pretty much uniquely) designed to exacerbate this crisis
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biotech twitter, what's the deal with Egnyte? Why do companies seem to prefer it over Dropbox, Box, Google Drive etc? It seems great, but so do the others. What's the killer feature it has that others don't?
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If you love recruiting and developing an amazing team, please reach out!
Reverie is hiring a Head of People! If recruiting and supporting an exceptional, diverse group of people at a rapidly growing therapeutics company sounds fun, my DMs are open :)
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The indefatigable Lucy out with more amazing work! So proud!!
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Super excited that
@Neo
is launching Startup Connect - Can't wait to meet CS students there with
@ReverieLabs
!
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Another blog post up!
@gabe_grand
shares how we rapidly build internal web applications that enable us to develop therapeutics with our machine learning models. Check it out!
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Very excited to have Valarie on board!
I’m delighted to announce that we have hired Valarie Truax, Ph.D., M.B.A. as VP of Business Development and Corporate Strategy at
@reverielabs
!
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.
@Microsoft
can you unbrick Github before you create AGI
.
@Microsoft
invests $1 billion in
@OpenAI
partnership, founded on shared values of trustworthiness and empowerment, to accelerate AI innovation and help OpenAI deliver on the promise of artificial general intelligence.
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@ my fellow Asian-Americans who want to improve college admissions, plz direct your attention at this instead of dismantling affirmative action
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Unreal level of shade here
It's always a good day to be reminded that I got where I am because a great education was available for $50 a semester at the University of Houston (go Cougars!). We need to cancel student debt and make college free for everyone who wants it.
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The Lagaan remake on right now is not trending towards the original finish :/
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If you're interested in YC and in the Boston area, a partner is hosting office hours at Harvard this Tuesday. Check it out and let me know if you have any questions:
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6/ So anyways, our little voting bloc is probably not going to decide this election. But we better be on the correct side of history. And to the gerontocracy running this world, watch out we're coming for your jobs
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think it's time for Boeing to pull a Microsoft and promote an Indian-American to CEO to turn things around
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Starting a blog! Check it out at . I'll be mostly writing about machine learning, but probably other topics too. First post summarizes the work I presented at
#icml2017
.
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@rbhar90
strongly recommend all the way for this
@rbhar90
. We use this for all of our infra at
@reverielabs
. Two commands to deploy our entire tech stack.
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Super proud of Lucy for pushing for action from the AMA, especially on gun control legislation that was featured in the Washington Post today!
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A fantastic writeup from a close friend and excellent researcher!
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@jpochtar
Yeah, easy to say something was going to be efficacious and safe in hindsight. And pretty illogical to say it when mRNA vaccines have been used 0 times in the past. Also weird to compare to polio which had WAY higher morbidity for an infected person.
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Who would have thought that amassing and exploiting vulnerabilities for years was an awful idea?
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Since Congress is in fake recess for the next few months can we take away all of their health insurance? Seems to be the ~American Way~. /s
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5/ And relatedly, it has been exciting to see political participation grow (maybe as a result of that!). My parents have always voted, but until this year they'd never gone out of their way to turn out others in faraway swing states
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@mgdurrant
Nature Cancer and NRDD usually have good ones indexed by modality
Examples:
Antibodies:
Small Molecules:
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