Computational geneticist/bioinformatician. Genetic architecture of complex traits, human genetics, gene regulation.

Bengaluru
Joined April 2010
We are looking for faculty. In particular, the computational biology group, but also other groups. If you want to work in a small, informal, institute on leading-edge areas of computational biology, broadly interpreted: please apply! And please share imsc.res.in/facultyrecruitme…
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math.iisc.ac.in/~vamsipingal… My thoughts on the elephant in the room
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It took me a moment to realise that the statutory warning for smoking/alcohol here is because the dogs are smoking and drinking. In a painting.
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PhD supervisor: What's wrong with your data? Mum: What's wrong with you? Therapist: What's wrong with your life? Predatory journals: Dear Eminent Professor,
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As a companion to the GI genetics paper, we wrote up some results from the phenotypes we recorded. We see enormous variation in phenotypes across the country, with ethnicity contributing significantly to variation. 1/medrxiv.org/content/10.64898…
GIP results are out. The beauty of human diversity in India hasn't faded a bit. Out of the 5000-odd communities, the largest genetic dataset for India includes only about 80 pops. This means these results are just 1.6% of the whole story 1/n #india medrxiv.org/content/10.64898…
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We hope this will lead to larger and deeper phenotypic studies that will fill in the gaps in Indian public health. Interested in visualizing these data? We have a dashboard up at @ibdctweets for data visualization and summary stats: ibdc.dbt.gov.in/gipheno/ . n/n
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Big thanks to all participants, the GI consortium, and lead authors @Debasrija1 , Chandrika Bhattacharya and Analabha Basu.
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Shweta retweeted
I've spent a lot of time with Claude Code in the past 4 months. There have been 3 types of interactions. I want to share a bit here, since most of my fellow economists have a lot to say about AI, apparently. 1) Specific coding asks - too many to count, very much productivity enhancing in specific tasks. Saves time in routine programming. Great. 2) Working with CC with a lot of interaction to model and calibrate: a ton of hand holding but getting very quick feedback on ideas and iteration. I have only *one* successful example of that and it'll likely go into a publication. Very productive, but largely as a highly effective RA who happens to be able to give very fast feedback on ideas (like simulating a model, or estimating using data, to test out a hypothesis). And it took a lot of my time to make it work, with tons of time where CC was going to go off the deep end without my hand holding. So, my managerial capacity was absolutely a critical constraining factor. I can't do this for too many projects. 3) Letting CC "write a paper" from scratch on an interesting topic and prompts, and minimal detailed instructions. Here I found CC roaming free to be highly unpredictable in quality, and largely a disappointment. On matters I have expertise it would often go on the wrong track and reach a dead end unless I veered it away. This includes theory and empirics. When I let it just write a paper based on its findings the quality was questionable, and at the minimum would require major time commitment to make it viable. I have 3 such full-paper drafts. I doubt any of them will see the light of the day. Maybe someone smarter than me can seed CC with the right starting point to produce an enormous number of successful papers. Or, maybe not. Bottom line: based on my very personal experience (not gonna say you all are like me), this makes me feel (1) there are very clear but limited productivity gains in the pipeline (2) people who appear to think we're at the cusp of the singularity will probably be deeply disappointed.
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Excellent post by Rachel Thomas in the ways AI hype is outrunning reality in life sciences linkedin.com/feed/update/urn…
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The real sign of AI writing is not superficial stuff like “It’s not X—it’s Y”. It’s the hollowness. Polished writing but relatively mundane ideas. The giveaway is that you’re less impressed when you read it the second time. With good writing, it should be the other way around. I’m not sure this is inherently about AI. It’s more about the fact that people tend to turn to AI when they don’t have much to say. Reading text that has the syntactic smell of AI is mildly annoying, but when I read hollow writing I feel the writer is wasting my time, which is much more frustrating. So don’t do it. People are unlikely to respond to your email or subscribe to your newsletter or whatever you’re trying to get them to do. And they’ll probably remember that you betrayed their trust as a reader.
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Applications open for ICTP-IISc workshop on Physics of Cancer (20 experimental and/or computational speakers in stochastic cellular decisions, cellular competition & cooperation, soft matter aspects and tumor-immune co-evolution dynamics). Apply by Feb 15! indico.ictp.it/event/11123/o…
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Applications open for our six-week computational oncology summer training 2026 (May 18 - June 26; due: Feb 15, 2026). tinyurl.com/bdhth4em Plz RT @biopatrika @BE_IISc @iiscbangalore @rakeshthejoy @karthikraman @abandopa @DynamicsLiving @mathoncbro @DeepakNModi @r_sabarinathan
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Curious about how evolution takes place? Are you looking for a "first-course" in the subject? My book, Fundamentals of Evolutionary Biology (CRC Press), takes a microbe-first approach and explains how molecular and cellular processes drive evolution.
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For the last few decades, we have defined science by the publication of peer-reviewed research. That is, a scientist is someone who can write a paper and have it reviewed by two or four other scientists who conclude that the work is credible. Notice how this is a circular definition: it defines a scientist as, effectively, a member of a social club of people who agree on writing conventions. Contrary to what many people believe, this system of peer review is recent. When Watson and Crick submitted their ‘double helix’ paper to Nature in 1953, it did not go to reviewers. Peer review became the dominant model in the 1970s. It emerged around the same time the West adopted aspects of the Soviet model of science. It also coincided with a decade-long stagnation in science. I believe it was a mistake. Sure, science is still making amazing progress. I celebrate the incredible scientific productivity of enterprises like Google DeepMind and OpenAI—enterprises that do not rely on conventional peer review. This model of ‘peer-review science’ now faces an existential threat. In fact, I do not believe that the current dominant model of science, established in the early 1970s, can survive. Indeed, Large Language Models can produce papers today that can pass the peer review test. In a sense, it is an even easier test to pass than the Turing test, because the conventions of peer review science are so artificial. Why would anyone be paid to write papers that are indistinguishable from what ChatGPT can produce in mere seconds? So where do we go from here? There is only one option. We have to stop considering the research paper as the end product of research. It never was, in any case. That was always a convenient bureaucratic convention, inspired by the need to ‘manage science.’ If ChatGPT can produce research papers that are indistinguishable from what most scientists can write, then maybe scientists can focus on actually advancing science—something that ChatGPT has thus far proven unable to do. « AI’s ability to generate vast amounts of text raises concerns about a potential flood of irrelevant theoretical papers, further straining the evaluation system. Stonebraker’s (2018) call for rewarding problem-solving over publication needs revisiting. Perhaps the emphasis should be on the impact and significance of research, not just its passage through peer review—a skill replicable by AI. » Daniel Lemire. 2024. Will AI Flood Us with Irrelevant Papers? Commun. ACM 67, 9 (September 2024), 9. doi.org/10.1145/3673649
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If you are in Bangalore and near IISc on Sep 3rd, consider coming to this event
🚀As an exciting week draws to a close, here's something inspiring to look forward to next! Join us on 03 Sep 2025 (Wednesday) for 'Why Machines Learn', a captivating book talk by @anilananth and a panel discussion! 📈This in-person event will explore the AI wave and its evolution, its underlying architecture, and its impact on society. 📝To register: cbr-iisc.ac.in/events-bookta… 📖To learn more about the acclaimed book: anilananthaswamy.com/why-mac… #AIML #artificiallintelligence #MachineLearning #DataScience #DeepLearning #AIforSocialGood #aifordevelopment #AIForHealthAndInnovation #aiforgood
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Hope the genetics community in India gets ahead of this and focuses on the required outreach and communication this requires
Genetic "optimization" of embryos appears to be becoming mainstream. The narrative currently is largely controlled by startups that range across the spectrum from hardcore snake-oil to well-intentioned & occasionally strong domain expertise. But these are not neutral parties. 1/
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Interesting project at CCL, IIT Gandhinagar aimed at creating a hardware tinkering temperament amongst school going children. The video is a great example of making a working clock w/o writing any s/w in a HLL. Many such initiatives are needed to get students to become unafraid of tinkering with hardware and help move India up the semiconductor value chain. youtube.com/watch?v=xB8s--3H… @ccl_iitgn
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