sevinc
@ercanlab.bsky.social
professor of biology @nyu, genome organization, gene regulation, chromosomes in general and X in particular, SMCs, c. elegans, evolution
Pinned
sevinc
@ercanlab.bsky.social
· May 7
Cohesin organizes 3D DNA contacts surrounding active enhancers in C. elegans - PubMed
In mammals, cohesin and CTCF organize the 3D genome into topologically associating domains (TADs) to regulate communication between <i>cis</i>-regulatory elements. Many organisms, including <i>S. cere...
pubmed.ncbi.nlm.nih.gov
our latest work summary: cohesin is preferentially loaded at/near active enhancers and loop extrudes in both directions, forming loops that create the dna contacts that appear as the newly defined "fountains" in hic maps pubmed.ncbi.nlm.nih.gov/40210441/
Reposted by sevinc
I wrote about the recent autism-microbiome paper, why I think it's the most important microbiome paper this year, and what it says about the field
open.substack.com/pub/blekhman...
open.substack.com/pub/blekhman...
The Autism-Microbiome Hypothesis Is Falling Apart
Why this new review paper should be required reading for every microbiome researcher
open.substack.com
November 19, 2025 at 5:12 PM
I wrote about the recent autism-microbiome paper, why I think it's the most important microbiome paper this year, and what it says about the field
open.substack.com/pub/blekhman...
open.substack.com/pub/blekhman...
Reposted by sevinc
We are pleased to announce a new preprint by @mlweilert.bsky.social: “Widespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCs” (www.biorxiv.org/content/10.1...). See summary and longer recap below:
(TLDR; low-affinity motifs matter as pioneers!)
(TLDR; low-affinity motifs matter as pioneers!)
Widespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCs
Low-affinity transcription factor (TF) motifs are an important element of the cis-regulatory code, yet they are notoriously difficult to map and mechanistically incompletely understood, limiting our a...
www.biorxiv.org
November 19, 2025 at 8:57 PM
We are pleased to announce a new preprint by @mlweilert.bsky.social: “Widespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCs” (www.biorxiv.org/content/10.1...). See summary and longer recap below:
(TLDR; low-affinity motifs matter as pioneers!)
(TLDR; low-affinity motifs matter as pioneers!)
Reposted by sevinc
🧪hey all, a friend and colleague, @maddoxfornc.bsky.social, is running for Congress in North Carolina. He is a scientist, professor, and parent, perspectives that are especially important right now. I hope you will support his run for Congress. Find out more here: www.maddoxforcongress.com/about/
Meet Paul Maddox
Paul Maddox is a world-renowned cancer researcher, two-time entrepreneur, and native son of Western North Carolina–and now, a candidate for U.S. Congress. ....
www.maddoxforcongress.com
October 30, 2025 at 7:26 PM
🧪hey all, a friend and colleague, @maddoxfornc.bsky.social, is running for Congress in North Carolina. He is a scientist, professor, and parent, perspectives that are especially important right now. I hope you will support his run for Congress. Find out more here: www.maddoxforcongress.com/about/
Reposted by sevinc
Nature Communications will publish ~10K papers in 2025 pubmed.ncbi.nlm.nih.gov?term=%22Natu...
That's ~$70M in revenue, while many of the non-profit journals that used to occupy that slot in the journal hierarchy have seen a precipitous decline in submissions in the 15 years it's existed.
That's ~$70M in revenue, while many of the non-profit journals that used to occupy that slot in the journal hierarchy have seen a precipitous decline in submissions in the 15 years it's existed.
October 27, 2025 at 8:38 PM
Nature Communications will publish ~10K papers in 2025 pubmed.ncbi.nlm.nih.gov?term=%22Natu...
That's ~$70M in revenue, while many of the non-profit journals that used to occupy that slot in the journal hierarchy have seen a precipitous decline in submissions in the 15 years it's existed.
That's ~$70M in revenue, while many of the non-profit journals that used to occupy that slot in the journal hierarchy have seen a precipitous decline in submissions in the 15 years it's existed.
Reposted by sevinc
I'm floored by colleagues who are totally not interested in understanding the Nature Comms scourge of academic publishing and just throw their science and their money at these losers
October 26, 2025 at 7:47 PM
I'm floored by colleagues who are totally not interested in understanding the Nature Comms scourge of academic publishing and just throw their science and their money at these losers
C. elegans is a little animal with sexually dimorphic tails. Fitch lab does wonderful work on the evolution and transcriptional regulation of tail tip morphogenesis in nematodes.
New in #GENETICS: Using Chip-seq and mutant analysis, Fernandez et al. show the transcriptional control of the male tail tip morphogenesis during development by the master regulator of a male-specific morphogenesis gene DMD-3. buff.ly/EGahYv2
October 10, 2025 at 5:34 PM
C. elegans is a little animal with sexually dimorphic tails. Fitch lab does wonderful work on the evolution and transcriptional regulation of tail tip morphogenesis in nematodes.
Reposted by sevinc
New in #GENETICS: Using Chip-seq and mutant analysis, Fernandez et al. show the transcriptional control of the male tail tip morphogenesis during development by the master regulator of a male-specific morphogenesis gene DMD-3. buff.ly/EGahYv2
October 9, 2025 at 8:02 PM
New in #GENETICS: Using Chip-seq and mutant analysis, Fernandez et al. show the transcriptional control of the male tail tip morphogenesis during development by the master regulator of a male-specific morphogenesis gene DMD-3. buff.ly/EGahYv2
Reposted by sevinc
I didn't think I could admire Azim Surani more than I already did
journals.biologists.com/dev/article/...
journals.biologists.com/dev/article/...
An interview with Azim Surani
Professor Azim Surani is the Director of Epigenomics and Germline Imprinting at the Gurdon Institute in Cambridge, UK. He is this year's recipient of both the prestigious Kyoto Prize and the Paul Ehrl...
journals.biologists.com
October 3, 2025 at 11:35 AM
I didn't think I could admire Azim Surani more than I already did
journals.biologists.com/dev/article/...
journals.biologists.com/dev/article/...
Reposted by sevinc
Hi fellow C. elegans scientists, I've made a few videos that may be of use for new trainees working in worm labs. Hoping to add more in the future, but figured I'd share this resource as is in case it's helpful :)
www.youtube.com/@Workingwith...
www.youtube.com/@Workingwith...
Working with C. elegans
This channel provides clear demonstrations of core C. elegans lab skills, including: recognizing life stages and common phenotypes, picking and manipulating worms, and maintaining healthy cultures. De...
www.youtube.com
October 1, 2025 at 7:20 PM
Hi fellow C. elegans scientists, I've made a few videos that may be of use for new trainees working in worm labs. Hoping to add more in the future, but figured I'd share this resource as is in case it's helpful :)
www.youtube.com/@Workingwith...
www.youtube.com/@Workingwith...
Reposted by sevinc
For academic purposes, I generated 100 UMAPs from the same tabular raw data, I sorted them and the result looks too funny to not share it with you 😃
haesleinhuepf.github.io/BioImageAnal...
haesleinhuepf.github.io/BioImageAnal...
October 1, 2025 at 2:17 PM
For academic purposes, I generated 100 UMAPs from the same tabular raw data, I sorted them and the result looks too funny to not share it with you 😃
haesleinhuepf.github.io/BioImageAnal...
haesleinhuepf.github.io/BioImageAnal...
Reposted by sevinc
C. elegans is a real animal and we set out to understand how it comes to have its distinctive biogeography. Its ancestral center of diversity is in the higher elevation forests of Hawaii. Its closest relatives are spread across east Asia. Did they travel from Asia? [Preprint 🧵]
September 24, 2025 at 8:33 PM
C. elegans is a real animal and we set out to understand how it comes to have its distinctive biogeography. Its ancestral center of diversity is in the higher elevation forests of Hawaii. Its closest relatives are spread across east Asia. Did they travel from Asia? [Preprint 🧵]
Reposted by sevinc
This is my reminder of what the American people need from her.
2/2
2/2
July 31, 2025 at 12:58 PM
This is my reminder of what the American people need from her.
2/2
2/2
Reposted by sevinc
For who still thinks this can’t happen here… it’s already happening.
www.theatlantic.com/science/arch...
www.theatlantic.com/science/arch...
Every Scientific Empire Comes to an End
America’s run as the premiere techno-superpower may be over.
www.theatlantic.com
July 31, 2025 at 2:47 PM
For who still thinks this can’t happen here… it’s already happening.
www.theatlantic.com/science/arch...
www.theatlantic.com/science/arch...
Reposted by sevinc
The "reproducibility crisis" in science constantly makes headlines. Repro efforts are often limited. What if you could assess reproducibility of an entire field?
That's what @brunolemaitre.bsky.social et al. have done. Fly immunity is highly replicable & offers lessons for #metascience
A 🧵 1/n
That's what @brunolemaitre.bsky.social et al. have done. Fly immunity is highly replicable & offers lessons for #metascience
A 🧵 1/n
July 10, 2025 at 8:23 AM
The "reproducibility crisis" in science constantly makes headlines. Repro efforts are often limited. What if you could assess reproducibility of an entire field?
That's what @brunolemaitre.bsky.social et al. have done. Fly immunity is highly replicable & offers lessons for #metascience
A 🧵 1/n
That's what @brunolemaitre.bsky.social et al. have done. Fly immunity is highly replicable & offers lessons for #metascience
A 🧵 1/n
Reposted by sevinc
Andrew Cuomo thinks its absurd for the city try to to own a grocery story while New York State owns three (!) ski resorts and Cuomo personally oversaw their operation, even heralding it in his state of the state address.
Look it up if you don’t believe me.
Look it up if you don’t believe me.
June 28, 2025 at 8:55 PM
Andrew Cuomo thinks its absurd for the city try to to own a grocery story while New York State owns three (!) ski resorts and Cuomo personally oversaw their operation, even heralding it in his state of the state address.
Look it up if you don’t believe me.
Look it up if you don’t believe me.
Reposted by sevinc
Great ad. This guy is great. Don’t let anyone tell you otherwise. Don’t be deterred by racist scare tactics! This guy is great, as is Lander.
Don’t rank Cuomo.
Don’t rank Cuomo.
If you’re under 30, you weren’t even born the last time Andrew Cuomo lived here.
This is your city. Vote like it.
This is your city. Vote like it.
June 20, 2025 at 10:35 PM
Great ad. This guy is great. Don’t let anyone tell you otherwise. Don’t be deterred by racist scare tactics! This guy is great, as is Lander.
Don’t rank Cuomo.
Don’t rank Cuomo.
Reposted by sevinc
Springer-Nature launched a series of "Discover" journals that closely mimic MDPI titles -- sharing *identical* journal names, and likely similar business model.
What is going on, and why researcher will - as always - fall for it?
A 🧵
the-strain-on-scientific-publishing.github.io/website/post...
What is going on, and why researcher will - as always - fall for it?
A 🧵
the-strain-on-scientific-publishing.github.io/website/post...
Springer Nature Discovers MDPI – The Strain on Scientific Publishing
Home page for the paper ‘The Strain on Scientific Publishing’ by Mark A Hanson, Dan Brockington, Paolo Crosetto and Pablo Gomez Barreiro
the-strain-on-scientific-publishing.github.io
June 15, 2025 at 2:21 PM
Springer-Nature launched a series of "Discover" journals that closely mimic MDPI titles -- sharing *identical* journal names, and likely similar business model.
What is going on, and why researcher will - as always - fall for it?
A 🧵
the-strain-on-scientific-publishing.github.io/website/post...
What is going on, and why researcher will - as always - fall for it?
A 🧵
the-strain-on-scientific-publishing.github.io/website/post...
Reposted by sevinc
New from The Strain Team:
🎊 Springer Nature Discovers MDPI 🎊
Springer Nature has spawned a copycat journal series called "Discover" mimicking #MDPI journal titles and citation behaviours. We even made a browser game to prove it (see 🔗).
Gross! 😀 1/n
#ResearchIntegrity #SciPub #AcademicSky
🎊 Springer Nature Discovers MDPI 🎊
Springer Nature has spawned a copycat journal series called "Discover" mimicking #MDPI journal titles and citation behaviours. We even made a browser game to prove it (see 🔗).
Gross! 😀 1/n
#ResearchIntegrity #SciPub #AcademicSky
Spinger Nature Discovers MDPI – The Strain on Scientific Publishing
Home page for the paper ‘The Strain on Scientific Publishing’ by Mark A Hanson, Dan Brockington, Paolo Crosetto and Pablo Gomez Barreiro
the-strain-on-scientific-publishing.github.io
June 10, 2025 at 5:49 AM
New from The Strain Team:
🎊 Springer Nature Discovers MDPI 🎊
Springer Nature has spawned a copycat journal series called "Discover" mimicking #MDPI journal titles and citation behaviours. We even made a browser game to prove it (see 🔗).
Gross! 😀 1/n
#ResearchIntegrity #SciPub #AcademicSky
🎊 Springer Nature Discovers MDPI 🎊
Springer Nature has spawned a copycat journal series called "Discover" mimicking #MDPI journal titles and citation behaviours. We even made a browser game to prove it (see 🔗).
Gross! 😀 1/n
#ResearchIntegrity #SciPub #AcademicSky
Reposted by sevinc
CUNY and SUNY faculty, please sign this letter to the NY State Congressional Delegation protesting cuts to research funding (and all the other crap going on)!
docs.google.com/forms/d/e/1F...
Thank you for reposting!
docs.google.com/forms/d/e/1F...
Thank you for reposting!
New York's Congressional Delegation Must Defend Federal Research Funding for CUNY & SUNY. List of signatories.
FACULTY & STAFF: ADD YOUR NAME BELOW TO THIS OPEN LETTER WRITTEN BY THE DEFENDING RESEARCH FUNDING WORKING GROUP OF THE PROFESSIONAL STAFF CONGRESS/CUNY
Federal investment in scientific research gene...
docs.google.com
May 28, 2025 at 6:04 PM
CUNY and SUNY faculty, please sign this letter to the NY State Congressional Delegation protesting cuts to research funding (and all the other crap going on)!
docs.google.com/forms/d/e/1F...
Thank you for reposting!
docs.google.com/forms/d/e/1F...
Thank you for reposting!
Reposted by sevinc
At last night's mayoral forum cosponsored by Hell Gate and NY Focus at the Public Theater, @zohrankmamdani.bsky.social asked @bradlander.bsky.social a question that Lander was more than ready to answer: What he thought was the worst thing Andrew Cuomo did as governor.
May 16, 2025 at 9:34 PM
At last night's mayoral forum cosponsored by Hell Gate and NY Focus at the Public Theater, @zohrankmamdani.bsky.social asked @bradlander.bsky.social a question that Lander was more than ready to answer: What he thought was the worst thing Andrew Cuomo did as governor.
Reposted by sevinc
The new Neil Halloran documentary on Smallpox has completely changed how I see the RFK Jr. version of the world. Neil (softly) argues that realizing that disease isn't the fault of the sick /or/ the fault of the Gods ushered in a new future where we felt the authority to care for each other.
May 17, 2025 at 2:28 AM
The new Neil Halloran documentary on Smallpox has completely changed how I see the RFK Jr. version of the world. Neil (softly) argues that realizing that disease isn't the fault of the sick /or/ the fault of the Gods ushered in a new future where we felt the authority to care for each other.
Reposted by sevinc
What a horror show to have put that man in charge of anything. The documentary is very short and very good. You can watch it here: www.youtube.com/watch?v=ybVZ...
Defeating a Virus That Killed Half a Billion People – The Plea
YouTube video by Neil Halloran
www.youtube.com
May 17, 2025 at 2:28 AM
What a horror show to have put that man in charge of anything. The documentary is very short and very good. You can watch it here: www.youtube.com/watch?v=ybVZ...
Reposted by sevinc
This was illuminating and useful… not at all surprised by my #1, but I made helpful discoveries elsewhere. (And no, I'm not telling.)
FW: Find your own match, powered by @thecity.nyc and @gothamist.com: projects.thecity.nyc/meet-your-ma...
FW: Find your own match, powered by @thecity.nyc and @gothamist.com: projects.thecity.nyc/meet-your-ma...
Take the Quiz: Meet Your Mayor 2025
Candidates for NYC mayor told us where they stand on issues. Which is the top match for you? Find out before heading to the polls.
projects.thecity.nyc
May 14, 2025 at 12:47 PM
This was illuminating and useful… not at all surprised by my #1, but I made helpful discoveries elsewhere. (And no, I'm not telling.)
FW: Find your own match, powered by @thecity.nyc and @gothamist.com: projects.thecity.nyc/meet-your-ma...
FW: Find your own match, powered by @thecity.nyc and @gothamist.com: projects.thecity.nyc/meet-your-ma...
our latest work summary: cohesin is preferentially loaded at/near active enhancers and loop extrudes in both directions, forming loops that create the dna contacts that appear as the newly defined "fountains" in hic maps pubmed.ncbi.nlm.nih.gov/40210441/
Cohesin organizes 3D DNA contacts surrounding active enhancers in C. elegans - PubMed
In mammals, cohesin and CTCF organize the 3D genome into topologically associating domains (TADs) to regulate communication between <i>cis</i>-regulatory elements. Many organisms, including <i>S. cere...
pubmed.ncbi.nlm.nih.gov
May 7, 2025 at 4:26 PM
our latest work summary: cohesin is preferentially loaded at/near active enhancers and loop extrudes in both directions, forming loops that create the dna contacts that appear as the newly defined "fountains" in hic maps pubmed.ncbi.nlm.nih.gov/40210441/
Reposted by sevinc
Politicians, lawyers and journalists who left behind autocratic systems in Europe, Asia and Latin America see the Trump administration employing similar methods.
People who fled authoritarian regimes say Trump's tactics remind them of home
Politicians, lawyers and journalists who left behind autocratic systems in Europe, Asia and Latin America see the Trump administration employing similar methods.
www.npr.org
May 1, 2025 at 5:07 PM
Politicians, lawyers and journalists who left behind autocratic systems in Europe, Asia and Latin America see the Trump administration employing similar methods.