Denis Puthier
@denisputhier.bsky.social
Science, T-cell development, thymus, genomics, bioinformatics, reproducibility, HPC, ML, software development, E-learning and many more...
Reposted by Denis Puthier
BREAKING: Our client Mario Guevara, an Emmy-winning journalist detained by ICE in retaliation for livestreaming law enforcement activity, will be deported tomorrow to El Salvador.
Mario and his family are being punished for his reporting. This cruelty is meant to stifle our free press.
Mario and his family are being punished for his reporting. This cruelty is meant to stifle our free press.
October 2, 2025 at 10:42 PM
BREAKING: Our client Mario Guevara, an Emmy-winning journalist detained by ICE in retaliation for livestreaming law enforcement activity, will be deported tomorrow to El Salvador.
Mario and his family are being punished for his reporting. This cruelty is meant to stifle our free press.
Mario and his family are being punished for his reporting. This cruelty is meant to stifle our free press.
Reposted by Denis Puthier
We knew — we knew — that hotter seas meant stronger hurricanes, that warmer air meant wetter storms, that rising seas meant higher surges. We had the science. We had the evidence. And still we chose to accelerate, to subsidize fossil fuels, to silence the truth.
open.substack.com/pub/rebekahj...
open.substack.com/pub/rebekahj...
Twenty Years After Katrina: What We Chose Not to Learn
##August 29, 2005 — Hurricane Katrina makes landfall
open.substack.com
August 22, 2025 at 6:54 PM
We knew — we knew — that hotter seas meant stronger hurricanes, that warmer air meant wetter storms, that rising seas meant higher surges. We had the science. We had the evidence. And still we chose to accelerate, to subsidize fossil fuels, to silence the truth.
open.substack.com/pub/rebekahj...
open.substack.com/pub/rebekahj...
Reposted by Denis Puthier
We’re excited to present this integrative analysis of single-cell proteomics and transcriptomics of the human HSPC hierarchy. Now published in @science.org together with @fabiantheis.bsky.social, @erwinschoof.bsky.social, @porsebo.bsky.social.
www.science.org/doi/10.1126/...
🧵
www.science.org/doi/10.1126/...
🧵
Mapping early human blood cell differentiation using single-cell proteomics and transcriptomics
Single-cell transcriptomics (scRNA-seq) has facilitated the characterization of cell state heterogeneity and recapitulation of differentiation trajectories. However, the exclusive use of mRNA measurem...
www.science.org
August 22, 2025 at 6:03 AM
We’re excited to present this integrative analysis of single-cell proteomics and transcriptomics of the human HSPC hierarchy. Now published in @science.org together with @fabiantheis.bsky.social, @erwinschoof.bsky.social, @porsebo.bsky.social.
www.science.org/doi/10.1126/...
🧵
www.science.org/doi/10.1126/...
🧵
Reposted by Denis Puthier
"I want to vibe code the genome"
—the illustrious @casey.greenelab.com
as quoted by @jperkel.bsky.social @nature.com 🧬🖥️ #MLSky www.nature.com/articles/d41...
—the illustrious @casey.greenelab.com
as quoted by @jperkel.bsky.social @nature.com 🧬🖥️ #MLSky www.nature.com/articles/d41...
Beyond AlphaFold: how AI is decoding the grammar of the genome
Scientists are seeking to decipher the role of non-coding DNA in the human genome, helped by a suite of artificial-intelligence tools.
www.nature.com
August 18, 2025 at 9:42 PM
"I want to vibe code the genome"
—the illustrious @casey.greenelab.com
as quoted by @jperkel.bsky.social @nature.com 🧬🖥️ #MLSky www.nature.com/articles/d41...
—the illustrious @casey.greenelab.com
as quoted by @jperkel.bsky.social @nature.com 🧬🖥️ #MLSky www.nature.com/articles/d41...
Reposted by Denis Puthier
In case you didn't know:
You can run your package unit tests with {testthat} in parallel with two simple steps (see testthat.r-lib.org/articles/par...):
tldr:
1. Add `Config/testthat/parallel: true` to DESCRIPTION.
2. Add `TESTTHAT_CPUS=8` to your .Renviron and restart R.
#rstats
You can run your package unit tests with {testthat} in parallel with two simple steps (see testthat.r-lib.org/articles/par...):
tldr:
1. Add `Config/testthat/parallel: true` to DESCRIPTION.
2. Add `TESTTHAT_CPUS=8` to your .Renviron and restart R.
#rstats
August 18, 2025 at 7:24 AM
In case you didn't know:
You can run your package unit tests with {testthat} in parallel with two simple steps (see testthat.r-lib.org/articles/par...):
tldr:
1. Add `Config/testthat/parallel: true` to DESCRIPTION.
2. Add `TESTTHAT_CPUS=8` to your .Renviron and restart R.
#rstats
You can run your package unit tests with {testthat} in parallel with two simple steps (see testthat.r-lib.org/articles/par...):
tldr:
1. Add `Config/testthat/parallel: true` to DESCRIPTION.
2. Add `TESTTHAT_CPUS=8` to your .Renviron and restart R.
#rstats
Reposted by Denis Puthier
Single-cell multitargets and mRNA sequencing enable the simultaneous profiling of transcriptome and up to six histone modifications in individual cells
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
August 6, 2025 at 6:51 PM
Single-cell multitargets and mRNA sequencing enable the simultaneous profiling of transcriptome and up to six histone modifications in individual cells
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Reposted by Denis Puthier
The University of Michigan’s Department of Epidemiology, one of the best IMO, will not be admitting any PhD students for 2026 due to funding concerns brought about by the Trump Administration.
UMich cancels doctoral epidemiology program admissions for 2026
The University of Michigan School of Public Health will not admit a 2025-2026 admissions cycle cohort to its PhD in Epidemiologic Sciences program.
www.michigandaily.com
July 31, 2025 at 6:45 PM
The University of Michigan’s Department of Epidemiology, one of the best IMO, will not be admitting any PhD students for 2026 due to funding concerns brought about by the Trump Administration.
But damn, Donald, aren't you tired of lying like that all the time? Wouldn't you like to take a vacation ? Pfff...
July 31, 2025 at 6:49 PM
But damn, Donald, aren't you tired of lying like that all the time? Wouldn't you like to take a vacation ? Pfff...
Reposted by Denis Puthier
New powerful article up in the New York Times on cancelled and delayed grants
www.nytimes.com/interactive/...
www.nytimes.com/interactive/...
Here Are the Nearly 2,500 Medical Research Grants Canceled or Delayed by Trump (Gift Article)
Some cuts have been starkly visible, but the country’s medical grant-making machinery has also radically transformed outside the public eye.
www.nytimes.com
June 4, 2025 at 3:01 PM
New powerful article up in the New York Times on cancelled and delayed grants
www.nytimes.com/interactive/...
www.nytimes.com/interactive/...
Reposted by Denis Puthier
Inkscape plugin to rescale figures without distorting the text, and other useful features!
github.com/burghoff/Sci...
github.com/burghoff/Sci...
June 2, 2025 at 12:15 PM
Inkscape plugin to rescale figures without distorting the text, and other useful features!
github.com/burghoff/Sci...
github.com/burghoff/Sci...
Reposted by Denis Puthier
Last night, Russia unleashed ballistic missiles and hundreds of drones on a European capital. Today? The world barely blinks. Western media push it off the headlines, treating it as distant. But silence isn’t neutral — it enables aggression. Indifference has a price, and Ukraine pays it.
May 25, 2025 at 6:11 AM
Last night, Russia unleashed ballistic missiles and hundreds of drones on a European capital. Today? The world barely blinks. Western media push it off the headlines, treating it as distant. But silence isn’t neutral — it enables aggression. Indifference has a price, and Ukraine pays it.
Reposted by Denis Puthier
If you love your library, listen up…
April 15, 2025 at 1:45 AM
If you love your library, listen up…
Reposted by Denis Puthier
My "tax the rich" keychain model for 3D printing on Maker World just hit another download milestone!
Public domain for your use.
makerworld.com/models/1132253
I also sell them on Etsy.
amandaroosart.etsy.com/listing/1884...
Public domain for your use.
makerworld.com/models/1132253
I also sell them on Etsy.
amandaroosart.etsy.com/listing/1884...
April 7, 2025 at 8:36 PM
My "tax the rich" keychain model for 3D printing on Maker World just hit another download milestone!
Public domain for your use.
makerworld.com/models/1132253
I also sell them on Etsy.
amandaroosart.etsy.com/listing/1884...
Public domain for your use.
makerworld.com/models/1132253
I also sell them on Etsy.
amandaroosart.etsy.com/listing/1884...
Reposted by Denis Puthier
Reposted by Denis Puthier
Reposted by Denis Puthier
Reposted by Denis Puthier
The head of the nation’s (and world’s) premiere SIGINT agency was fire on the whim of far-right conspiracist Laura Loomer:
National Security Agency chief ousted after far-right activist urged his removal
Gen. Timothy Haugh was fired Thursday as director of the powerful wiretapping and cyberespionage service, according to U.S. officials.
www.washingtonpost.com
April 4, 2025 at 3:42 PM
The head of the nation’s (and world’s) premiere SIGINT agency was fire on the whim of far-right conspiracist Laura Loomer:
Reposted by Denis Puthier
I've uncovered the full tariff equation
April 3, 2025 at 10:52 PM
I've uncovered the full tariff equation
Reposted by Denis Puthier
Kseniia Petrova, a Russian scientist at Harvard Medical School, was detained at Logan Airport after returning from France and sent to an ICE detention in Louisiana, The Insider reports.
A big critic of Putin and the war in Ukraine, she may now be deported to Russia.
A big critic of Putin and the war in Ukraine, she may now be deported to Russia.
March 27, 2025 at 8:53 PM
Kseniia Petrova, a Russian scientist at Harvard Medical School, was detained at Logan Airport after returning from France and sent to an ICE detention in Louisiana, The Insider reports.
A big critic of Putin and the war in Ukraine, she may now be deported to Russia.
A big critic of Putin and the war in Ukraine, she may now be deported to Russia.
Reposted by Denis Puthier
The below walks you through how to delete your DNA data from 23andMe before it goes bankrupt.
Your DNA is for sale.
This is the danger of all personal data. As a commodity, it is always at risk of being sold. oag.ca.gov/news/press-r...
This is the danger of all personal data. As a commodity, it is always at risk of being sold. oag.ca.gov/news/press-r...
Attorney General Bonta Urgently Issues Consumer Alert for 23andMe Customers
Californians have the right to direct the company to delete their genetic data OAKLAND — California Attorney General Rob Bonta today issued a consumer alert to customers of 23andMe, a genetic testing ...
oag.ca.gov
March 24, 2025 at 3:27 AM
The below walks you through how to delete your DNA data from 23andMe before it goes bankrupt.
Reposted by Denis Puthier
Your DNA is for sale.
This is the danger of all personal data. As a commodity, it is always at risk of being sold. oag.ca.gov/news/press-r...
This is the danger of all personal data. As a commodity, it is always at risk of being sold. oag.ca.gov/news/press-r...
Attorney General Bonta Urgently Issues Consumer Alert for 23andMe Customers
Californians have the right to direct the company to delete their genetic data OAKLAND — California Attorney General Rob Bonta today issued a consumer alert to customers of 23andMe, a genetic testing ...
oag.ca.gov
March 24, 2025 at 2:57 AM
Your DNA is for sale.
This is the danger of all personal data. As a commodity, it is always at risk of being sold. oag.ca.gov/news/press-r...
This is the danger of all personal data. As a commodity, it is always at risk of being sold. oag.ca.gov/news/press-r...
Reposted by Denis Puthier
Trump’s Special Envoy Steve Witkoff assures us that none of these nightly attacks are actually happening because the Kremlin assured him that they are not taking place and “I trust Putin is acting in good faith.”
March 20, 2025 at 10:00 AM
Trump’s Special Envoy Steve Witkoff assures us that none of these nightly attacks are actually happening because the Kremlin assured him that they are not taking place and “I trust Putin is acting in good faith.”
Reposted by Denis Puthier
Reseaerchers please consider taking part in this survey about research practices undertaking by my colleague @dominiquemakowski.bsky.social limesurvey-lettres.sorbonne-universite.fr/index.php/51...
Map research practices survey
limesurvey-lettres.sorbonne-universite.fr
March 20, 2025 at 10:29 AM
Reseaerchers please consider taking part in this survey about research practices undertaking by my colleague @dominiquemakowski.bsky.social limesurvey-lettres.sorbonne-universite.fr/index.php/51...
Reposted by Denis Puthier
💡 Saviez-vous que les maladies rares ne sont pas si rares ? 🤔
Même si une maladie est définie comme rare lorsqu'elle affecte moins de 5 personnes sur 10 000, l'ensemble touche environ 3 millions de personnes en France, souvent des enfants.
Même si une maladie est définie comme rare lorsqu'elle affecte moins de 5 personnes sur 10 000, l'ensemble touche environ 3 millions de personnes en France, souvent des enfants.
March 20, 2025 at 10:56 AM
💡 Saviez-vous que les maladies rares ne sont pas si rares ? 🤔
Même si une maladie est définie comme rare lorsqu'elle affecte moins de 5 personnes sur 10 000, l'ensemble touche environ 3 millions de personnes en France, souvent des enfants.
Même si une maladie est définie comme rare lorsqu'elle affecte moins de 5 personnes sur 10 000, l'ensemble touche environ 3 millions de personnes en France, souvent des enfants.