Anil Raj
@anilraj.bsky.social
principal data scientist @ calico life sciences | applied mathematics | statistical and population genetics | genetics and biology of complex traits in mice and humans | humans as model organisms
Reposted by Anil Raj
Reposted by Anil Raj
being an indie bookseller in the helltimes has felt both very stable and very stabilizing, and part of me wishes everyone could be on my side of the counter for a little while, because I think it would help some of you be a little less cynical and doomy right now. so here is my VERY anecdotal data:
March 22, 2025 at 3:36 AM
being an indie bookseller in the helltimes has felt both very stable and very stabilizing, and part of me wishes everyone could be on my side of the counter for a little while, because I think it would help some of you be a little less cynical and doomy right now. so here is my VERY anecdotal data:
Reposted by Anil Raj
Bluetorial: Women, courage, and leadership
What follows will include some generalizations based on population averages of what I have experienced over the course of my career. There are, of course, exceptions in every group who are substantially more to one extreme or the other.
What follows will include some generalizations based on population averages of what I have experienced over the course of my career. There are, of course, exceptions in every group who are substantially more to one extreme or the other.
a cartoon says hey everybody an old man 's talking while bart simpson looks on
ALT: a cartoon says hey everybody an old man 's talking while bart simpson looks on
media.tenor.com
March 9, 2025 at 4:33 AM
Bluetorial: Women, courage, and leadership
What follows will include some generalizations based on population averages of what I have experienced over the course of my career. There are, of course, exceptions in every group who are substantially more to one extreme or the other.
What follows will include some generalizations based on population averages of what I have experienced over the course of my career. There are, of course, exceptions in every group who are substantially more to one extreme or the other.
Reposted by Anil Raj
I have a brilliant scientist in my group. She proposed we approach our science as a once in a lifetime opportunity. So, let's do the risky experiments, think deeply, write beautifully, and show reverence to the most awe-some career
@inikon.bsky.social
@inikon.bsky.social
opportunity.do
March 1, 2025 at 4:12 AM
I have a brilliant scientist in my group. She proposed we approach our science as a once in a lifetime opportunity. So, let's do the risky experiments, think deeply, write beautifully, and show reverence to the most awe-some career
@inikon.bsky.social
@inikon.bsky.social
Reposted by Anil Raj
Thanks to all of the NIHers and their friends who reached out to me. I am still here (DM me or Signal jeremymberg.78)
I still have a very incomplete picture but based on what I have been told, the damage to NIH and to many wonderful people who work(ed) there is/was impossible for me to imagine
1/n
I still have a very incomplete picture but based on what I have been told, the damage to NIH and to many wonderful people who work(ed) there is/was impossible for me to imagine
1/n
February 16, 2025 at 6:32 AM
Thanks to all of the NIHers and their friends who reached out to me. I am still here (DM me or Signal jeremymberg.78)
I still have a very incomplete picture but based on what I have been told, the damage to NIH and to many wonderful people who work(ed) there is/was impossible for me to imagine
1/n
I still have a very incomplete picture but based on what I have been told, the damage to NIH and to many wonderful people who work(ed) there is/was impossible for me to imagine
1/n
Reposted by Anil Raj
It’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS or other (non-LCH) dendritic or histiocytic sarcomas cases.
February 8, 2025 at 9:21 PM
It’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS or other (non-LCH) dendritic or histiocytic sarcomas cases.
Reposted by Anil Raj
1. Today the NIH director issued a new directive slashing overhead rates to 15%.
I want to provide some context on what that means and why it matters.
grants.nih.gov/grants/guide...
I want to provide some context on what that means and why it matters.
grants.nih.gov/grants/guide...
NOT-OD-25-068: Supplemental Guidance to the 2024 NIH Grants Policy Statement: Indirect Cost Rates
NIH Funding Opportunities and Notices in the NIH Guide for Grants and Contracts: Supplemental Guidance to the 2024 NIH Grants Policy Statement: Indirect Cost Rates NOT-OD-25-068. OD
grants.nih.gov
February 8, 2025 at 12:18 AM
1. Today the NIH director issued a new directive slashing overhead rates to 15%.
I want to provide some context on what that means and why it matters.
grants.nih.gov/grants/guide...
I want to provide some context on what that means and why it matters.
grants.nih.gov/grants/guide...
Reposted by Anil Raj
Modern-Day Oracles or Bullshit Machines?
Jevin West (@jevinwest.bsky.social) and I have spent the last eight months developing the course on large language models (LLMs) that we think every college freshman needs to take.
thebullshitmachines.com
Jevin West (@jevinwest.bsky.social) and I have spent the last eight months developing the course on large language models (LLMs) that we think every college freshman needs to take.
thebullshitmachines.com
INTRODUCTION
thebullshitmachines.com
February 4, 2025 at 4:12 PM
Modern-Day Oracles or Bullshit Machines?
Jevin West (@jevinwest.bsky.social) and I have spent the last eight months developing the course on large language models (LLMs) that we think every college freshman needs to take.
thebullshitmachines.com
Jevin West (@jevinwest.bsky.social) and I have spent the last eight months developing the course on large language models (LLMs) that we think every college freshman needs to take.
thebullshitmachines.com
Reposted by Anil Raj
scATAC-seq generates more accurate and complete regulatory maps than bulk ATAC-seq
www.nature.com/articles/s41...
www.nature.com/articles/s41...
scATAC-seq generates more accurate and complete regulatory maps than bulk ATAC-seq - Scientific Reports
Scientific Reports - scATAC-seq generates more accurate and complete regulatory maps than bulk ATAC-seq
www.nature.com
February 1, 2025 at 11:42 PM
scATAC-seq generates more accurate and complete regulatory maps than bulk ATAC-seq
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Anil Raj
The thing about science is that if a phenomenon such as climate science weren’t real, they wouldn’t need an executive order forbidding its study.
The better we explain the social processes of science, the clearer it will be to everyone that this EO is an admission that climate change is real.
The better we explain the social processes of science, the clearer it will be to everyone that this EO is an admission that climate change is real.
January 29, 2025 at 2:20 AM
The thing about science is that if a phenomenon such as climate science weren’t real, they wouldn’t need an executive order forbidding its study.
The better we explain the social processes of science, the clearer it will be to everyone that this EO is an admission that climate change is real.
The better we explain the social processes of science, the clearer it will be to everyone that this EO is an admission that climate change is real.
Reposted by Anil Raj
Modern GWAS can identify 1000s of significant hits but it can be hard to turn this into biological insight. What key cellular functions link genetic variation to disease?
I'm very excited to present our new work combining associations and Perturb-seq to build interpretable causal graphs! A 🧵
I'm very excited to present our new work combining associations and Perturb-seq to build interpretable causal graphs! A 🧵
January 26, 2025 at 12:13 AM
Modern GWAS can identify 1000s of significant hits but it can be hard to turn this into biological insight. What key cellular functions link genetic variation to disease?
I'm very excited to present our new work combining associations and Perturb-seq to build interpretable causal graphs! A 🧵
I'm very excited to present our new work combining associations and Perturb-seq to build interpretable causal graphs! A 🧵
Reposted by Anil Raj
My book, An Intuitive Primer on Effective Functional Genomics Study Design, is published! I’d really appreciate it if you could help spread the word, and I’d love to hear your thoughts and feedback. I hope people will find it useful.
It’s available on Amazon: tinyurl.com/mx2hewen
It’s available on Amazon: tinyurl.com/mx2hewen
January 17, 2025 at 2:30 PM
My book, An Intuitive Primer on Effective Functional Genomics Study Design, is published! I’d really appreciate it if you could help spread the word, and I’d love to hear your thoughts and feedback. I hope people will find it useful.
It’s available on Amazon: tinyurl.com/mx2hewen
It’s available on Amazon: tinyurl.com/mx2hewen
Reposted by Anil Raj
Time to share our organelle proteome paper
out in @cellcellpress.bsky.social: doi.org/nzwz
We created a spatial map of human cells using organelle immunoprecipitation at scale.
Locate your fav protein among the 7,600 we mapped across 19 subcellular compartments: organelles.sf.czbiohub.org/
1/3 🧪
out in @cellcellpress.bsky.social: doi.org/nzwz
We created a spatial map of human cells using organelle immunoprecipitation at scale.
Locate your fav protein among the 7,600 we mapped across 19 subcellular compartments: organelles.sf.czbiohub.org/
1/3 🧪
January 14, 2025 at 4:03 PM
Time to share our organelle proteome paper
out in @cellcellpress.bsky.social: doi.org/nzwz
We created a spatial map of human cells using organelle immunoprecipitation at scale.
Locate your fav protein among the 7,600 we mapped across 19 subcellular compartments: organelles.sf.czbiohub.org/
1/3 🧪
out in @cellcellpress.bsky.social: doi.org/nzwz
We created a spatial map of human cells using organelle immunoprecipitation at scale.
Locate your fav protein among the 7,600 we mapped across 19 subcellular compartments: organelles.sf.czbiohub.org/
1/3 🧪
Reposted by Anil Raj
Friends and colleagues, I’ve written a book on effective functional genomics study design, which will be available on Amazon in a couple of weeks. Sharing the TOC to spark interest. I hope students and those planning genomics experiments will find it useful! I’ll share updates soon
January 10, 2025 at 3:40 AM
Friends and colleagues, I’ve written a book on effective functional genomics study design, which will be available on Amazon in a couple of weeks. Sharing the TOC to spark interest. I hope students and those planning genomics experiments will find it useful! I’ll share updates soon
Reposted by Anil Raj
I'm gathering that Bluesky is less interested in long science threads 🧪, but I need you all to know the majesty that is the pea aphid, Acyrthosiphon pisum:
It can 'feed' on sunlight;
gives birth to live, pregnant clone-babies;
needs to be bacterially infected to survive.
Photo by Shipher Wu.
It can 'feed' on sunlight;
gives birth to live, pregnant clone-babies;
needs to be bacterially infected to survive.
Photo by Shipher Wu.
August 15, 2023 at 1:08 PM
I'm gathering that Bluesky is less interested in long science threads 🧪, but I need you all to know the majesty that is the pea aphid, Acyrthosiphon pisum:
It can 'feed' on sunlight;
gives birth to live, pregnant clone-babies;
needs to be bacterially infected to survive.
Photo by Shipher Wu.
It can 'feed' on sunlight;
gives birth to live, pregnant clone-babies;
needs to be bacterially infected to survive.
Photo by Shipher Wu.
Reposted by Anil Raj
So, you may ask, why do I get so angry about the new liberal spin on RFK Jr, as in, "he gets some things right, so let's collaborate on those" or "we have to work with him because he has a huge following we need to reach"? Because I've seen this movie before. 1/
January 2, 2025 at 10:55 AM
So, you may ask, why do I get so angry about the new liberal spin on RFK Jr, as in, "he gets some things right, so let's collaborate on those" or "we have to work with him because he has a huge following we need to reach"? Because I've seen this movie before. 1/
Reposted by Anil Raj
Why probability probably doesn’t exist (but it is useful to act like it does) www.nature.com/articles/d41...
David Spiegelhalter doesn't appear to be on bsky but he wrote this wonderful piece that came out in Nature just before the holidays
David Spiegelhalter doesn't appear to be on bsky but he wrote this wonderful piece that came out in Nature just before the holidays
Why probability probably doesn’t exist (but it is useful to act like it does)
All of statistics and much of science depends on probability — an astonishing achievement, considering no one’s really sure what it is.
www.nature.com
December 30, 2024 at 6:30 PM
Why probability probably doesn’t exist (but it is useful to act like it does) www.nature.com/articles/d41...
David Spiegelhalter doesn't appear to be on bsky but he wrote this wonderful piece that came out in Nature just before the holidays
David Spiegelhalter doesn't appear to be on bsky but he wrote this wonderful piece that came out in Nature just before the holidays
Reposted by Anil Raj
my #1 duty to students is to teach them how to think. AI makes this job harder not easier. A closely related duty I owe is to not let students become accomplices in their own future irrelevance just because it’s easier short term to cheat thinking w AI
No, they're not caught between anything. Stop it. The fact that AI may be used or useful in future jobs does not create a single dilemma at all for college students in how to actually complete their coursework. This is all nonsense & excuses for not doing the reading & learning how to think & write.
College students caught between professors' AI bans and employers' growing demand for AI skills
Research shows 75% of workers now use artificial intelligence on the job, yet many universities still classify its use as cheating.
www.phillyvoice.com
December 26, 2024 at 4:34 PM
my #1 duty to students is to teach them how to think. AI makes this job harder not easier. A closely related duty I owe is to not let students become accomplices in their own future irrelevance just because it’s easier short term to cheat thinking w AI
Reposted by Anil Raj
Bluetorial: Adventures with tenure-Part 1
a cartoon says hey everybody an old man 's talking while bart simpson looks on
ALT: a cartoon says hey everybody an old man 's talking while bart simpson looks on
media.tenor.com
December 18, 2024 at 12:25 PM
Bluetorial: Adventures with tenure-Part 1
Reposted by Anil Raj
Thrilled to see this paper out!! 🧪
Spatial transcriptomics of brain aging and 'spatial aging clocks' identify cells that have pro-aging or pro-rejuvenating effects on their neighbors!
Huge CONGRATS to Eric Sun and all authors! Fantastic collaboration with @jameszou.bsky.social!
rdcu.be/d33uQ 🧵
Spatial transcriptomics of brain aging and 'spatial aging clocks' identify cells that have pro-aging or pro-rejuvenating effects on their neighbors!
Huge CONGRATS to Eric Sun and all authors! Fantastic collaboration with @jameszou.bsky.social!
rdcu.be/d33uQ 🧵
Spatial transcriptomic clocks reveal cell proximity effects in brain ageing
Nature - A spatially resolved single-cell transcriptomics map of the mouse brain at different ages reveals signatures of ageing, rejuvenation and disease, including ageing effects associated with T...
rdcu.be
December 18, 2024 at 10:40 PM
Thrilled to see this paper out!! 🧪
Spatial transcriptomics of brain aging and 'spatial aging clocks' identify cells that have pro-aging or pro-rejuvenating effects on their neighbors!
Huge CONGRATS to Eric Sun and all authors! Fantastic collaboration with @jameszou.bsky.social!
rdcu.be/d33uQ 🧵
Spatial transcriptomics of brain aging and 'spatial aging clocks' identify cells that have pro-aging or pro-rejuvenating effects on their neighbors!
Huge CONGRATS to Eric Sun and all authors! Fantastic collaboration with @jameszou.bsky.social!
rdcu.be/d33uQ 🧵
Reposted by Anil Raj
Specificity, length, and luck: How genes are prioritized by rare and common variant association studies https://www.biorxiv.org/content/10.1101/2024.12.12.628073v1
December 16, 2024 at 10:33 AM
Specificity, length, and luck: How genes are prioritized by rare and common variant association studies https://www.biorxiv.org/content/10.1101/2024.12.12.628073v1
Reposted by Anil Raj
Today's Bluetorial: Dealing with Deans (Part 1)
a cartoon says hey everybody an old man 's talking while bart simpson looks on
ALT: a cartoon says hey everybody an old man 's talking while bart simpson looks on
media.tenor.com
November 29, 2024 at 3:08 PM
Today's Bluetorial: Dealing with Deans (Part 1)
Reposted by Anil Raj
Great stuff from the Genes & Health team!
www.nature.com/articles/s41...
@moneeza-ks.bsky.social @sarahfiner.bsky.social
@drmariespreckley.bsky.social
And many more
www.nature.com/articles/s41...
@moneeza-ks.bsky.social @sarahfiner.bsky.social
@drmariespreckley.bsky.social
And many more
Genetic basis of early onset and progression of type 2 diabetes in South Asians - Nature Medicine
In a cohort of 50,556 South Asian individuals, partitioned polygenic scores helped identify genetic susceptibility to insulin deficiency and unfavorable fat distribution as key drivers of young-onset ...
www.nature.com
November 26, 2024 at 11:45 AM
Great stuff from the Genes & Health team!
www.nature.com/articles/s41...
@moneeza-ks.bsky.social @sarahfiner.bsky.social
@drmariespreckley.bsky.social
And many more
www.nature.com/articles/s41...
@moneeza-ks.bsky.social @sarahfiner.bsky.social
@drmariespreckley.bsky.social
And many more
Reposted by Anil Raj
A bluetorial about some challenges for our two-career family and some flaws in the culture of biomedical research.
homer simpson from the simpsons is holding a cup in front of a picture
ALT: homer simpson from the simpsons is holding a cup in front of a picture
media.tenor.com
November 24, 2024 at 11:31 AM
A bluetorial about some challenges for our two-career family and some flaws in the culture of biomedical research.
Reposted by Anil Raj
Following a suggestion from @benecal.bsky.social I will refer to these threads as "skeetorials" and will use this gif logo.
Today's skeetorial is about the NIH Director's New Innovator Award with three different heroes (all in government).
1/n
Today's skeetorial is about the NIH Director's New Innovator Award with three different heroes (all in government).
1/n
a cartoon of homer simpson holding a card
ALT: a cartoon of homer simpson holding a card
media.tenor.com
November 23, 2024 at 1:05 PM
Following a suggestion from @benecal.bsky.social I will refer to these threads as "skeetorials" and will use this gif logo.
Today's skeetorial is about the NIH Director's New Innovator Award with three different heroes (all in government).
1/n
Today's skeetorial is about the NIH Director's New Innovator Award with three different heroes (all in government).
1/n