
Director, Computational Biology. [nrobine]@nygenome[.org] RNA-Seq / Cancer Genomics / anything NYC / mostly in English, sometimes in French.
New York City
Joined January 2010
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Somewhere between Oxford and the Pacific,
We work to Illuminate the Singular and Ultimate Elements of Life #DNADay
Nicolas Robine retweeted
#CancerResearch is a long-term bet the American people have chosen to make. Former @NIH and @theNCI Director Dr. Harold Varmus calls it “the high point of American civilization.” For people with cancer, that investment means better prevention, treatment, and survival. #YourNCI
Nicolas Robine retweeted
New online! Sequencing and analysis of the human adaptive immune receptor repertoire dlvr.it/TW8vC8
Nicolas Robine retweeted
Faculty ad is out,
please help spread the word
Come #DreamBig together, without a doubt,
in the best city in the world!
jobs.sciencecareers.org/job/…
Replying to @landau_lab
🚨We're recruiting! Calling all bold & original thinkers! Folks with imagination, drive & the (rare) ability to find the thin seam where the fantastical and real meet. Come join a thriving science community, in, beyond a shadow of a doubt, the greatest city in the 🌎 @nyknicks
See also "The Semantic Precision for AI Retrieval of Knowledge (SPARK) dbGaP Challenge"
nih.gov/challenges/semantic-…
Congrats. And be careful, genomics people: SPARK != SPARC 😂
sparkforautism.org/
sparc.utswmed.org/
Nicolas Robine retweeted
Delighted to share RNA fingerprinting, out today in @CellCellPress! Together with @david_a_knowles , we use Perturb-seq experiments—where the causal perturbation is known—to infer what drives cellular responses in new datasets: cell.com/cell/abstract/S0092…
The Commission launch today! A major truely global piece of work. The commission makes ten recommendations for equitable precision oncology. ICGC ARGO is proud to have lead sections on data, ethics and patient engagement.
@Raffa_Casolino @AAmberjay @QUBCancerProf @mcourtot
Just launched: Accelerating equitable cancer genomics and precision oncology in health care and research: a @TheLancetOncol Commission
With a new framework, implementation could be more equitable, effective, and sustainable
Read more: thelancet.com/commissions-do…
Nicolas Robine retweeted
Excited to see AI agents being used to accelerate scientific discovery. There is so much biological diversity, with many beautiful and useful systems still to be discovered and harnessed. This is an exciting step forward. Given how quickly AI is advancing, can’t wait to see how many new discoveries it will enable in the next few years. Congrats to the @AnthropicAI team (@mgdurrant @ntperry13 @eric_kabrams @DarioAmodei).
Claude has discovered a previously unknown enzyme system hidden in the DNA of bacteriophages. Beside the enzyme’s gene sits a long array of repeating DNA—a structure that looks somewhat similar to CRISPR.
We don’t yet understand what this system does, but only a handful of known systems share its features, and all of them are able to cut, copy, and paste DNA. Historically, the discovery of such programmable systems has helped revolutionize medicine. CRISPR, for instance, is now the foundation of genetic medicines. But it will take much more work to learn what this system does, and whether it can be put to similar use.
Read more: anthropic.com/news/claude-di…
Congrats. And be careful, genomics people: SPARK != SPARC 😂
sparkforautism.org/
sparc.utswmed.org/
SPARC is @UTSWMedCenter new population genomics program!
Website: sparc.utswmed.org/
Goal is to enroll 150,000 participants to support clinical and basic research.
Thread with details on the objectives + logistics
Did someone check if Feng Zhang spent his weekend in an hotel room instead of attending a conference recently?
Claude has discovered a previously unknown enzyme system hidden in the DNA of bacteriophages. Beside the enzyme’s gene sits a long array of repeating DNA—a structure that looks somewhat similar to CRISPR.
We don’t yet understand what this system does, but only a handful of known systems share its features, and all of them are able to cut, copy, and paste DNA. Historically, the discovery of such programmable systems has helped revolutionize medicine. CRISPR, for instance, is now the foundation of genetic medicines. But it will take much more work to learn what this system does, and whether it can be put to similar use.
Read more: anthropic.com/news/claude-di…
Calling this "wet lab discovery" hurts my bioinformatics feeling! (I know it's more exciting, but still... someone needs to call it out)
“The burden to think more creatively rests solely on them [the Math professors]”
Is that admitting a glaring limitation of AI? When will it be able to scope the next round of Millenium challenges?
Math Professors do not own math. Just the idea that letters are signed only by “Prize” winners should give one pause.
If AI, which is a just but a non-human student of mathematicians, wins all the “Prizes” by solving things humans cannot, Professors should be proud of their progeny, not threatened. AI is Math.
They should embrace the tool. Like vocalists embraced musical instruments. They should use their profoundly smart brains to engage larger problems or define their problem set more broadly. The burden to think more creatively rests solely on them. Meet the challenge or become less relevant.
Maybe they should think about so many of the unsolved mysteries in physics and biology that AI can help us unravel. The best biologists are almost always lapsed mathematicians or physicists
The world is changing. AI, risks properly managed, will open amazing new opportunities. We can solve disease, poverty, maybe take a whack at happiness.
Instead of defending a guild, real scientists will embrace and celebrate the challenge to solve the very mysteries that enticed them to question the universe’s current state.
Nicolas Robine retweeted
New on hg38: @GoogleDeepMind AlphaGenome Variant Impact (AVI) scores, all 8.8 billion possible single-base changes. It scores non-coding DNA too, flagging things like the TERT promoter mutations common in cancer.
See our news for more: bit.ly/GenomeBrowserAlphaGen…

ALT AVI scores at the TERT locus on hg38, one subtrack per alternate allele. Scores stay high across the highlighted promoter, shown in red as EH38E3622530, and fall to background either side. The two promoter mutations most often seen in cancer sit inside it, beyond the end of every TERT transcript.
MLCB 2026 will be held on Nov 16-17 at NY Genome Center!
This 2-day AI x Bio meeting is always a good time with amazing speakers, posters, and networking opportunities.
In-person registration by Sep 10 (it's free!): forms.gle/LEcDE8cSh71XgpgW8
More info: mlcb.org
Nicolas Robine retweeted
BioAI/ neuroAI are a super big hiring priority at cold spring harbor labs. CSHL is one of my favorite places. Great science. So if I was at that age I would be all over these positions. cshl.edu/about-us/careers/fa…
Nicolas Robine retweeted
In our new paper, we use long-read sequencing to study alternative polyadenylation in neurons: "Leveraging long read RNA-seq to decipher neuronal regulation of alternative polyadenylation".
nature.com/articles/s41467-0…
Nicolas Robine retweeted
3 papers in @Nature today reflecting large scale efforts at mapping dependencies and multimodal molecular profiling data from a large panel of patient-derived 3D cancer models. This is DepMap on steroids!
nature.com/articles/s41586-0…
nature.com/articles/s41586-0…
nature.com/articles/s41586-0…
Nicolas Robine retweeted
The Cancer Dependency Map now includes data from dozens of 3D cancer models across 10 cancer types, revealing new dependencies and offering a more comprehensive resource for cancer research. broad.io/DepMap3D
Nicolas Robine retweeted
The next generation of cancer research models has arrived. An international consortium led by CSHL and @NorthwellHealth has developed more than 150 organoid models representing actual patient tumors seen in pancreatic, breast, endometrial, colorectal, bladder, ovarian, head and neck, and lung cancers.
These powerful new tools are already being used in state-of-the-art cancer research, enabling scientists to test potential treatments and anticipate patients’ therapeutic response.
Read how CSHL's Tuveson Lab helped lead the international team behind groundbreaking cancer models that could accelerate the discovery of more effective treatments.
cshl.edu/cold-spring-harbor-…
#InspiringInnovation #ScienceMakesLifeBetter
@lustgartenfdn, @theNCI
Nicolas Robine retweeted
Today in @CellCellPress Dr. Hemali Phatnani and collaborators show different forms of cognitive impairment in ALS arise from biological processes, providing a new framework for understanding the disease and developing more precise therapies.
Read more: nygenome.org/news-events/new…
Nicolas Robine retweeted
It is mostly an attempt to translate biology from a random list of mechanisms 🤯 into a human-understandable mental picture. 🧠
Let me know what you think, what is missing, and how you would change things. Full map + notes here 👇
jkobject.com/blog/gene-regul…
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