Felix Raimundo
@gamazeps.bsky.social
Computational biologist; into cancer research, single-cell and epigenomics, previously @GoogleAI and @institutcurie.bsky.social (he/him)
Reposted by Felix Raimundo
My first @umasschan.bsky.social/@impvienna.bsky.social affiliated paper is up!
tomtom-lite is a re-implementation of tomtom targeting the ML age of genomics. Fast annotations ("what is this motif?") and simple large-scale discovery of motifs.
Check it out!
academic.oup.com/bioinformati...
tomtom-lite is a re-implementation of tomtom targeting the ML age of genomics. Fast annotations ("what is this motif?") and simple large-scale discovery of motifs.
Check it out!
academic.oup.com/bioinformati...
November 20, 2025 at 2:02 PM
My first @umasschan.bsky.social/@impvienna.bsky.social affiliated paper is up!
tomtom-lite is a re-implementation of tomtom targeting the ML age of genomics. Fast annotations ("what is this motif?") and simple large-scale discovery of motifs.
Check it out!
academic.oup.com/bioinformati...
tomtom-lite is a re-implementation of tomtom targeting the ML age of genomics. Fast annotations ("what is this motif?") and simple large-scale discovery of motifs.
Check it out!
academic.oup.com/bioinformati...
Reposted by Felix Raimundo
Can’t believe the whole country has to suffer through the return of Dickensian childhood diseases because the worst, most ignorant attention-demanders decided other people’s expertise makes them feel bad
November 20, 2025 at 4:19 AM
Can’t believe the whole country has to suffer through the return of Dickensian childhood diseases because the worst, most ignorant attention-demanders decided other people’s expertise makes them feel bad
Reposted by Felix Raimundo
I am seeing a lot of posts about Rosalind Franklin that themselves ignore her publication record on DNA!
In fact Franklin and Gosling's paper, including the famous Photograph #51, was published, along with Wilkins's paper, back-to-back with the Watson and Crick paper in Nature in 1953.
In fact Franklin and Gosling's paper, including the famous Photograph #51, was published, along with Wilkins's paper, back-to-back with the Watson and Crick paper in Nature in 1953.
November 9, 2025 at 6:43 PM
I am seeing a lot of posts about Rosalind Franklin that themselves ignore her publication record on DNA!
In fact Franklin and Gosling's paper, including the famous Photograph #51, was published, along with Wilkins's paper, back-to-back with the Watson and Crick paper in Nature in 1953.
In fact Franklin and Gosling's paper, including the famous Photograph #51, was published, along with Wilkins's paper, back-to-back with the Watson and Crick paper in Nature in 1953.
Reposted by Felix Raimundo
building housing reduces the cost of housing, period, whether it's luxury or professional class or "affordable." when demand exceeds supply, people who can afford better settle for something less, pushing everyone else further down. just build housing! JUST. BUILD. HOUSING
October 25, 2025 at 10:31 PM
building housing reduces the cost of housing, period, whether it's luxury or professional class or "affordable." when demand exceeds supply, people who can afford better settle for something less, pushing everyone else further down. just build housing! JUST. BUILD. HOUSING
It's not necromancy, it's postmortem communications
Speaking with the dead, or necromancy, is explicitly forbidden in the bible multiple times
Churches showing an AI Charlie Kirk telling congregants, through an artificial voice, not to let evil win is a new level of instrumentalizing the dead.
When Trump goes, I think we’re going to see the same thing. Visions and AI slop will abound. Prophecies and messages from beyond the grave.
When Trump goes, I think we’re going to see the same thing. Visions and AI slop will abound. Prophecies and messages from beyond the grave.
October 16, 2025 at 4:29 PM
It's not necromancy, it's postmortem communications
I also find it hilarious that all of them consider "trading crypto" as a job.
Like my brother in Satoshi, what have you produced for society ?
Like my brother in Satoshi, what have you produced for society ?
If I chose to invest in speculative bubbles I would simply sell before the bubble burst, maybe I’m built different
October 12, 2025 at 9:09 PM
I also find it hilarious that all of them consider "trading crypto" as a job.
Like my brother in Satoshi, what have you produced for society ?
Like my brother in Satoshi, what have you produced for society ?
I think we should bring back actual drawings, and take a picture / scan !
What's the point of wasting 2 days making a pretty svg of something that takes 5 minutes to draw with a few sharpies and a notebook, that doesn't create anything new
What's the point of wasting 2 days making a pretty svg of something that takes 5 minutes to draw with a few sharpies and a notebook, that doesn't create anything new
Begging scientists (and media posts about science) to stop using ChatGPT-generated images
October 10, 2025 at 5:11 PM
I think we should bring back actual drawings, and take a picture / scan !
What's the point of wasting 2 days making a pretty svg of something that takes 5 minutes to draw with a few sharpies and a notebook, that doesn't create anything new
What's the point of wasting 2 days making a pretty svg of something that takes 5 minutes to draw with a few sharpies and a notebook, that doesn't create anything new
Reposted by Felix Raimundo
Now that I'm settled in at @umasschan.bsky.social, I'm hiring at all levels: grad students, post-docs, and software engineers/bioinformaticians!
The goal of my lab is to understand the regulatory role of every nucleotide in our genomes and how this changes across every cell in our bodies.
The goal of my lab is to understand the regulatory role of every nucleotide in our genomes and how this changes across every cell in our bodies.
October 7, 2025 at 3:24 PM
Now that I'm settled in at @umasschan.bsky.social, I'm hiring at all levels: grad students, post-docs, and software engineers/bioinformaticians!
The goal of my lab is to understand the regulatory role of every nucleotide in our genomes and how this changes across every cell in our bodies.
The goal of my lab is to understand the regulatory role of every nucleotide in our genomes and how this changes across every cell in our bodies.
Reposted by Felix Raimundo
Wow
Austria has lured 25 American researchers away from U.S. institutions including Harvard, the MIT and Princeton with grants set up in response to the Trump administration's funding cuts
Austria has lured 25 American researchers away from U.S. institutions including Harvard, the MIT and Princeton with grants set up in response to the Trump administration's funding cuts
September 25, 2025 at 11:43 PM
Wow
Austria has lured 25 American researchers away from U.S. institutions including Harvard, the MIT and Princeton with grants set up in response to the Trump administration's funding cuts
Austria has lured 25 American researchers away from U.S. institutions including Harvard, the MIT and Princeton with grants set up in response to the Trump administration's funding cuts
Reposted by Felix Raimundo
I was delighted to have the unexpected opportunity to give a keynote at MLCB 2025 in NYC last week. I used it to explain how I view deep learning models in genomics not as "uninterpretable black boxes" but as indispensable tools for understanding genomics + designing the next gen of synthetic DNA.
September 19, 2025 at 1:59 PM
I was delighted to have the unexpected opportunity to give a keynote at MLCB 2025 in NYC last week. I used it to explain how I view deep learning models in genomics not as "uninterpretable black boxes" but as indispensable tools for understanding genomics + designing the next gen of synthetic DNA.
Reposted by Felix Raimundo
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August 25, 2025 at 4:16 PM
If you're interested in a @statnews.com subscription and are a student, new graduate, teacher, or health care worker, see this page for discounts on offer.
www.statnews.com/stat-subscri...
www.statnews.com/stat-subscri...
Reposted by Felix Raimundo
My talk on #Composability in genomic software at #SciPy2025 is up on YouTube where I showcase both #anywidget and #oxbow.
Thank you to the organizers for the opportunity to present this to both computational biologists and the wider scientific computing community!
www.youtube.com/watch?v=G22_...
Thank you to the organizers for the opportunity to present this to both computational biologists and the wider scientific computing community!
www.youtube.com/watch?v=G22_...
Nezar Abdennur - Accelerating Genomic Data Science and AI/ML with Composability | SciPy 2025
YouTube video by SciPy
www.youtube.com
August 25, 2025 at 5:20 PM
My talk on #Composability in genomic software at #SciPy2025 is up on YouTube where I showcase both #anywidget and #oxbow.
Thank you to the organizers for the opportunity to present this to both computational biologists and the wider scientific computing community!
www.youtube.com/watch?v=G22_...
Thank you to the organizers for the opportunity to present this to both computational biologists and the wider scientific computing community!
www.youtube.com/watch?v=G22_...
Should we bring back the anger translator ?
youtube.com/watch?v=HkAK9QRe4ds
youtube.com/watch?v=HkAK9QRe4ds
August 22, 2025 at 6:34 PM
Should we bring back the anger translator ?
youtube.com/watch?v=HkAK9QRe4ds
youtube.com/watch?v=HkAK9QRe4ds
CDC employees: What are you gonna do about the shooting that happened in Emory
RFK Jr: Have you seen THESE guns ?
RFK Jr: Have you seen THESE guns ?
RFK Jr., Hegseth and Duffy are doing performative public workouts instead of their actual jobs and, what's even more pathetic, they are not remotely good at working out.
Sean Duffy has a Fox host help him do 3 pull-ups.
August 21, 2025 at 2:36 PM
CDC employees: What are you gonna do about the shooting that happened in Emory
RFK Jr: Have you seen THESE guns ?
RFK Jr: Have you seen THESE guns ?
Right, the only thing we should be anthropomorphizing are viruses, cancer, and drugs, as your bio teacher intended :p
100% endorse. LLM are not people. They are not alive. They are not sentient. They do not think like people think. They do not have experiences. But we use language all the time that muddies this water (and which serves commercial interests by misleading the public about the power of these tools)
Relatedly I think journalism could maybe use stronger professional style norms around not anthropomorphizing the computer systems we report on/reference in our writing.
August 20, 2025 at 11:23 AM
Right, the only thing we should be anthropomorphizing are viruses, cancer, and drugs, as your bio teacher intended :p
Reposted by Felix Raimundo
The adamant elite refusal to call bullshit is a big part of How We Got Here.
The prevailing cultural attitude for years is you must not, under any circumstances, treat anything as bad faith. You are obligated to find some reasonable idea and engage with that, even if you distort to get there.
The prevailing cultural attitude for years is you must not, under any circumstances, treat anything as bad faith. You are obligated to find some reasonable idea and engage with that, even if you distort to get there.
August 13, 2025 at 2:07 PM
The adamant elite refusal to call bullshit is a big part of How We Got Here.
The prevailing cultural attitude for years is you must not, under any circumstances, treat anything as bad faith. You are obligated to find some reasonable idea and engage with that, even if you distort to get there.
The prevailing cultural attitude for years is you must not, under any circumstances, treat anything as bad faith. You are obligated to find some reasonable idea and engage with that, even if you distort to get there.
Reposted by Felix Raimundo
We're excited to share our new preprint, "Joint decomposition of Hi-C maps reveals salient features of genome architecture across tissues and development", led by Thomas Reimonn. www.biorxiv.org/content/10.1...
Joint decomposition of Hi-C maps reveals salient features of genome architecture across tissues and development
The spatial organization of chromosomes in the nucleus is fundamental to cellular processes. Contact frequency maps from Hi-C and related chromosome conformation capture assays are increasingly availa...
www.biorxiv.org
August 11, 2025 at 8:41 PM
We're excited to share our new preprint, "Joint decomposition of Hi-C maps reveals salient features of genome architecture across tissues and development", led by Thomas Reimonn. www.biorxiv.org/content/10.1...
Reposted by Felix Raimundo
Is there a term for the sort of article that a law professor writes so as to get noticed by ideologues and appointed a circuit court? This feels like a sub genre.
July 24, 2025 at 5:31 PM
Is there a term for the sort of article that a law professor writes so as to get noticed by ideologues and appointed a circuit court? This feels like a sub genre.
Reposted by Felix Raimundo
Let me know if you're interested in learning more!
🖥️🧬I have a tool/lib that I want to make that I think will be useful. But, all of my students are busy with projects. While I have a plan & cycles to help, it will take way longer if I do it all myself. It needs to be written in Rust & be fast. If you’re interested in learning more, please ping me!
June 25, 2025 at 9:04 PM
Let me know if you're interested in learning more!
Reposted by Felix Raimundo
@saramostafavi.bsky.social (@Genentech) & I (@Stanford) r excited to announce co-advised postdoc positions for candidates with deep expertise in ML for bio (especially sequence to function models, causal perturbational models & single cell models). See details below. Pls RT 1/
June 19, 2025 at 8:55 PM
@saramostafavi.bsky.social (@Genentech) & I (@Stanford) r excited to announce co-advised postdoc positions for candidates with deep expertise in ML for bio (especially sequence to function models, causal perturbational models & single cell models). See details below. Pls RT 1/
Reposted by Felix Raimundo
actually surprised by how poorly jordan peterson performed on jubilee and feel this gives me an opening to emerge as an "intellectual," make a lot of money, and buy a home in a walkable neighborhood
May 27, 2025 at 6:17 PM
actually surprised by how poorly jordan peterson performed on jubilee and feel this gives me an opening to emerge as an "intellectual," make a lot of money, and buy a home in a walkable neighborhood
Reposted by Felix Raimundo
UnitedHealth secretly pressured nurses to change patients' records to include DNRs (Do Not Resuscitate) without their consent, so those patients would die instead of being saved with medical interventions that could cost UnitedHealth money.
This is murder.
www.theguardian.com/us-news/2025...
This is murder.
www.theguardian.com/us-news/2025...
May 21, 2025 at 5:39 PM
UnitedHealth secretly pressured nurses to change patients' records to include DNRs (Do Not Resuscitate) without their consent, so those patients would die instead of being saved with medical interventions that could cost UnitedHealth money.
This is murder.
www.theguardian.com/us-news/2025...
This is murder.
www.theguardian.com/us-news/2025...
Reposted by Felix Raimundo
"We'll just terraform Mars," they insist, unable to terraform Earth, a planet that is already perfect except it's like 2° too warm.
May 10, 2025 at 5:40 AM
"We'll just terraform Mars," they insist, unable to terraform Earth, a planet that is already perfect except it's like 2° too warm.