New York Genome Center
@nygenome.org
An independent, nonprofit academic research institution at the forefront of transforming biomedical research to advance genomic science and precision medicine.
Reposted by New York Genome Center
TDP43 dysfunction in ALS leads to transposon mayhem in the transcriptome. Nice work from @nygenome.org ‘s ALS consortium, lead by Hemali Phatnani, and @nyulangone.bsky.social ‘s @karthiknatarajan.bsky.social & @mollygale.bsky.social. Nice work guys!
www.biorxiv.org/content/10.6...
www.biorxiv.org/content/10.6...
www.biorxiv.org
January 13, 2026 at 12:49 PM
TDP43 dysfunction in ALS leads to transposon mayhem in the transcriptome. Nice work from @nygenome.org ‘s ALS consortium, lead by Hemali Phatnani, and @nyulangone.bsky.social ‘s @karthiknatarajan.bsky.social & @mollygale.bsky.social. Nice work guys!
www.biorxiv.org/content/10.6...
www.biorxiv.org/content/10.6...
Reposted by New York Genome Center
📣Excited to announce a new pre-print from the lab 📣
Led by my student @storiesofisobel.bsky.social in collab with Hemali Phatnani @nygenome.org
We discovered a novel class of TDP-43 dependent cryptic gene-TE spliced transcripts: crypTEs
#TEsky #RNAsky #ALS
doi.org/10.64898/2026.01.09.698641
Led by my student @storiesofisobel.bsky.social in collab with Hemali Phatnani @nygenome.org
We discovered a novel class of TDP-43 dependent cryptic gene-TE spliced transcripts: crypTEs
#TEsky #RNAsky #ALS
doi.org/10.64898/2026.01.09.698641
TDP-43 dysfunction leads to the accumulation of cryptic transposable element-derived exons, crypTEs, in iPSC derived neurons and ALS/FTD patient tissues
TDP-43 is an RNA and DNA binding protein that plays major roles in regulating RNA processing. In particular, TDP-43 dysfunction leads to the accumulation of cryptic splice isoforms that result from im...
doi.org
January 10, 2026 at 5:52 PM
📣Excited to announce a new pre-print from the lab 📣
Led by my student @storiesofisobel.bsky.social in collab with Hemali Phatnani @nygenome.org
We discovered a novel class of TDP-43 dependent cryptic gene-TE spliced transcripts: crypTEs
#TEsky #RNAsky #ALS
doi.org/10.64898/2026.01.09.698641
Led by my student @storiesofisobel.bsky.social in collab with Hemali Phatnani @nygenome.org
We discovered a novel class of TDP-43 dependent cryptic gene-TE spliced transcripts: crypTEs
#TEsky #RNAsky #ALS
doi.org/10.64898/2026.01.09.698641
Reposted by New York Genome Center
Now online in Cancer Discovery @aacrjournals.bsky.social: Genotype-to-Phenotype Mapping of Somatic Clonal Mosaicism via Single-Cell Co-Capture of DNA Mutations & mRNA Transcripts by @dennisjyuan.bsky.social, @landau.bsky.social, et al. doi.org/10.1158/2159... @nygenome.org @weillcornell.bsky.social
January 7, 2026 at 2:51 PM
Now online in Cancer Discovery @aacrjournals.bsky.social: Genotype-to-Phenotype Mapping of Somatic Clonal Mosaicism via Single-Cell Co-Capture of DNA Mutations & mRNA Transcripts by @dennisjyuan.bsky.social, @landau.bsky.social, et al. doi.org/10.1158/2159... @nygenome.org @weillcornell.bsky.social
Reposted by New York Genome Center
A comprehensive spatial splicing analysis in the brain under normal and neoplastic conditions @natbiotech.nature.com @raulrabadan.bsky.social @columbiauniversity.bsky.social @davidaknowles.bsky.social @nygenome.org
www.nature.com/articles/s41...
www.nature.com/articles/s41...
January 6, 2026 at 4:17 AM
A comprehensive spatial splicing analysis in the brain under normal and neoplastic conditions @natbiotech.nature.com @raulrabadan.bsky.social @columbiauniversity.bsky.social @davidaknowles.bsky.social @nygenome.org
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Congratulations to NYGC Core Faculty Members, @nevillesanjana.bsky.social and Rahul Satija for their feature on the @clarivate.com #highlycited2025 list!
Learn more here:
www.nygenome.org/news-events/...
Learn more here:
www.nygenome.org/news-events/...
November 14, 2025 at 2:28 PM
Congratulations to NYGC Core Faculty Members, @nevillesanjana.bsky.social and Rahul Satija for their feature on the @clarivate.com #highlycited2025 list!
Learn more here:
www.nygenome.org/news-events/...
Learn more here:
www.nygenome.org/news-events/...
Reposted by New York Genome Center
Don't forget to watch our new Faces of IICD Video Series featuring Beatrice Grauman, a PhD student in the Vicković Lab @nygenome.org. ⤵️
Meet Beatrice Grauman, PhD student in the Vicković Lab at @nygenome.org 🌟. Her research explores tumor–microenvironment interactions and cancer evolution.
🎥Find out what inspires her outside the lab in our latest Faces of IICD feature
🔗 bit.ly/3K0Xidr
#FacesOfIICD #PhDLife #WomenInSTEM
🎥Find out what inspires her outside the lab in our latest Faces of IICD feature
🔗 bit.ly/3K0Xidr
#FacesOfIICD #PhDLife #WomenInSTEM
November 12, 2025 at 2:23 PM
Don't forget to watch our new Faces of IICD Video Series featuring Beatrice Grauman, a PhD student in the Vicković Lab @nygenome.org. ⤵️
Reposted by New York Genome Center
The November newsletter is out now. Don’t miss our alumni spotlight, cutting-edge research on colon aging, a new K-12 partnership, and other exciting updates: cancerdynamics.columbia.edu/news/iicd-ne...
cc: @nygenome.org @brentstockwell.bsky.social
cc: @nygenome.org @brentstockwell.bsky.social
November 3, 2025 at 2:13 PM
The November newsletter is out now. Don’t miss our alumni spotlight, cutting-edge research on colon aging, a new K-12 partnership, and other exciting updates: cancerdynamics.columbia.edu/news/iicd-ne...
cc: @nygenome.org @brentstockwell.bsky.social
cc: @nygenome.org @brentstockwell.bsky.social
Reposted by New York Genome Center
Tissue and cellular spatiotemporal dynamics in colon aging - @nygenome.org @flatironinstitute.org @broadinstitute.org @cancerdynamics.bsky.social go.nature.com/47I1RBF
Tissue and cellular spatiotemporal dynamics in colon aging - Nature Biotechnology
cSplotch compares spatial transcriptomics data across ages and regions of mouse colon tissue.
go.nature.com
October 22, 2025 at 2:45 PM
Tissue and cellular spatiotemporal dynamics in colon aging - @nygenome.org @flatironinstitute.org @broadinstitute.org @cancerdynamics.bsky.social go.nature.com/47I1RBF
Reposted by New York Genome Center
Congrats to our lab's recent MD-PhD grad Rachel Yan (
@rachelyan.bsky.social) on the beautiful cover art accompanying her MultiPerturb-seq study!
@rachelyan.bsky.social) on the beautiful cover art accompanying her MultiPerturb-seq study!
The October issue is live nature.com/nbt/volumes/...
The cover shows perturbations that convert stem-like, atypical teratoid rhabdoid tumor (AT/RT) cells into a more differentiated, neuron-like state go.nature.com/4hXER5O
The cover shows perturbations that convert stem-like, atypical teratoid rhabdoid tumor (AT/RT) cells into a more differentiated, neuron-like state go.nature.com/4hXER5O
October 14, 2025 at 6:41 PM
Congrats to our lab's recent MD-PhD grad Rachel Yan (
@rachelyan.bsky.social) on the beautiful cover art accompanying her MultiPerturb-seq study!
@rachelyan.bsky.social) on the beautiful cover art accompanying her MultiPerturb-seq study!
Reposted by New York Genome Center
From patient to scientist: Sergei German beat cancer thanks to clinical trials, inspiring him to leave his career in finance and drive research @nygenome.org
A NY statewide biomedical institute will make more incredible stories like his possible.
Help make this happen, sign up at www.nycures.org/
A NY statewide biomedical institute will make more incredible stories like his possible.
Help make this happen, sign up at www.nycures.org/
New York Cures – NY-CURESNew York Cures Website
NY-CURES is working to advance bold, state-backed investment in biomedical research—on the scale of successful initiatives in California and Texas—to grow New York’s leadership in science, innovation, and health.
www.nycures.org
October 8, 2025 at 3:20 PM
From patient to scientist: Sergei German beat cancer thanks to clinical trials, inspiring him to leave his career in finance and drive research @nygenome.org
A NY statewide biomedical institute will make more incredible stories like his possible.
Help make this happen, sign up at www.nycures.org/
A NY statewide biomedical institute will make more incredible stories like his possible.
Help make this happen, sign up at www.nycures.org/
Reposted by New York Genome Center
Meet Beatrice Grauman, PhD student in the Vicković Lab at @nygenome.org 🌟. Her research explores tumor–microenvironment interactions and cancer evolution.
🎥Find out what inspires her outside the lab in our latest Faces of IICD feature
🔗 bit.ly/3K0Xidr
#FacesOfIICD #PhDLife #WomenInSTEM
🎥Find out what inspires her outside the lab in our latest Faces of IICD feature
🔗 bit.ly/3K0Xidr
#FacesOfIICD #PhDLife #WomenInSTEM
September 15, 2025 at 5:24 PM
Meet Beatrice Grauman, PhD student in the Vicković Lab at @nygenome.org 🌟. Her research explores tumor–microenvironment interactions and cancer evolution.
🎥Find out what inspires her outside the lab in our latest Faces of IICD feature
🔗 bit.ly/3K0Xidr
#FacesOfIICD #PhDLife #WomenInSTEM
🎥Find out what inspires her outside the lab in our latest Faces of IICD feature
🔗 bit.ly/3K0Xidr
#FacesOfIICD #PhDLife #WomenInSTEM
Reposted by New York Genome Center
Massive team effort. A huge thank you to the Ultima Genomics team, our clinical collaborators and sequencing team @nygenome.org
Look at the author list, it's huge! Takes a village. Super proud of trainees Aaron, Sam and Sri
Look at the author list, it's huge! Takes a village. Super proud of trainees Aaron, Sam and Sri
August 14, 2025 at 5:41 PM
Massive team effort. A huge thank you to the Ultima Genomics team, our clinical collaborators and sequencing team @nygenome.org
Look at the author list, it's huge! Takes a village. Super proud of trainees Aaron, Sam and Sri
Look at the author list, it's huge! Takes a village. Super proud of trainees Aaron, Sam and Sri
Reposted by New York Genome Center
Our intern spotlight continues with Joel Joseph, a CS + Data Science senior @arizonastate.bsky.social. Mentored by Dr. Sanja Vicković @nygenome.org, his research focuses on using computational tools to study tumor interactions in colorectal cancer. bit.ly/SRPQA2025 @columbiauniversity.bsky.social
July 14, 2025 at 3:02 PM
Our intern spotlight continues with Joel Joseph, a CS + Data Science senior @arizonastate.bsky.social. Mentored by Dr. Sanja Vicković @nygenome.org, his research focuses on using computational tools to study tumor interactions in colorectal cancer. bit.ly/SRPQA2025 @columbiauniversity.bsky.social
Reposted by New York Genome Center
Meet Daniel Alshansky, a rising junior studying Biology & Computer Science @hofstrau.bsky.social. At the @nygenome.org Vicković Lab, he’s developing new transcriptomic engineering tools to push the boundaries of genomic research. Read more: bit.ly/SRPQA2025
June 27, 2025 at 2:03 PM
Meet Daniel Alshansky, a rising junior studying Biology & Computer Science @hofstrau.bsky.social. At the @nygenome.org Vicković Lab, he’s developing new transcriptomic engineering tools to push the boundaries of genomic research. Read more: bit.ly/SRPQA2025
Reposted by New York Genome Center
The SRP and Alliance interns had a great time touring the New York Genome Center this week! 🧬
Thanks to @nygenome.org for the warm welcome and an inside look at innovative research in action. #Genomics #SRP2025
Thanks to @nygenome.org for the warm welcome and an inside look at innovative research in action. #Genomics #SRP2025
June 12, 2025 at 2:54 PM
The SRP and Alliance interns had a great time touring the New York Genome Center this week! 🧬
Thanks to @nygenome.org for the warm welcome and an inside look at innovative research in action. #Genomics #SRP2025
Thanks to @nygenome.org for the warm welcome and an inside look at innovative research in action. #Genomics #SRP2025
NYGC Core Faculty Member @nevillesanjana.bsky.social presented at GEN bio’s “The State of CRISPR and Genome Editing” virtual summit. He spoke about CRISPR, the noncoding genome, & its potential to transform precision therapies.
For more on Dr. Sanjana’s work: bit.ly/43YshNC
For more on Dr. Sanjana’s work: bit.ly/43YshNC
June 11, 2025 at 8:10 PM
NYGC Core Faculty Member @nevillesanjana.bsky.social presented at GEN bio’s “The State of CRISPR and Genome Editing” virtual summit. He spoke about CRISPR, the noncoding genome, & its potential to transform precision therapies.
For more on Dr. Sanjana’s work: bit.ly/43YshNC
For more on Dr. Sanjana’s work: bit.ly/43YshNC
Reposted by New York Genome Center
Just under a week until the #MLCB2025 paper/abstract deadline on June 1st! In-person registration is full but you can join the wait list forms.gle/gnj6AAV7oWj6... or watch online at youtube.com/@mlcbconf. Sept 10-11 at @nygenome.org. Full deets at mlcb.org! Please RP.
Machine Learning in Computational Biology
Youtube channel for the Machine Learning in Computational Biology conference.
youtube.com
May 26, 2025 at 4:16 PM
Just under a week until the #MLCB2025 paper/abstract deadline on June 1st! In-person registration is full but you can join the wait list forms.gle/gnj6AAV7oWj6... or watch online at youtube.com/@mlcbconf. Sept 10-11 at @nygenome.org. Full deets at mlcb.org! Please RP.
Reposted by New York Genome Center
Free in-person registration is open for #MLCB2025! Sept 10-11 at @nygenome.org and online at youtube.com/@mlcbconf. Paper/abstract deadline is June 1, more deets including our fantastic invited speaker lineup at mlcb.org! Please RP.
Machine Learning in Computational Biology
Youtube channel for the Machine Learning in Computational Biology conference: https://mlcb.github.io/
youtube.com
May 15, 2025 at 12:24 AM
Free in-person registration is open for #MLCB2025! Sept 10-11 at @nygenome.org and online at youtube.com/@mlcbconf. Paper/abstract deadline is June 1, more deets including our fantastic invited speaker lineup at mlcb.org! Please RP.
Reposted by New York Genome Center
Our next NYC Postdoc Night Science event will be June 2nd! We'll start off at @nygenome.org, then head to a bar to continue the conversation.
Register here to join us! docs.google.com/forms/d/1s9W...
Register here to join us! docs.google.com/forms/d/1s9W...
May 14, 2025 at 11:10 PM
Our next NYC Postdoc Night Science event will be June 2nd! We'll start off at @nygenome.org, then head to a bar to continue the conversation.
Register here to join us! docs.google.com/forms/d/1s9W...
Register here to join us! docs.google.com/forms/d/1s9W...
Reposted by New York Genome Center
Our new contribution to the quest to find causal GWAS genes! Sam Ghatan from my lab at @nygenome.org led a systematic comparison of eQTLs and CRISPRi+scRNA-seq screens. TL;DR: they provide highly complementary insights, with ortogonal pros and cons. 🧵👇
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
May 6, 2025 at 5:01 PM
Our new contribution to the quest to find causal GWAS genes! Sam Ghatan from my lab at @nygenome.org led a systematic comparison of eQTLs and CRISPRi+scRNA-seq screens. TL;DR: they provide highly complementary insights, with ortogonal pros and cons. 🧵👇
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Single Cell Genomics Day 2025 has begun! Join the live stream here: satijalab.org/scgd25
Join the Satija Lab for the seventh annual Single Cell Genomics Day on 4/25 — a free, one-day workshop featuring recent advances & practical insights in single cell genomics, designed for researchers at all levels.
All talks will be live-streamed via: satijalab.org/scgd25. Hope to see you there!
All talks will be live-streamed via: satijalab.org/scgd25. Hope to see you there!
April 25, 2025 at 2:58 PM
Single Cell Genomics Day 2025 has begun! Join the live stream here: satijalab.org/scgd25
Join the Satija Lab for the seventh annual Single Cell Genomics Day on 4/25 — a free, one-day workshop featuring recent advances & practical insights in single cell genomics, designed for researchers at all levels.
All talks will be live-streamed via: satijalab.org/scgd25. Hope to see you there!
All talks will be live-streamed via: satijalab.org/scgd25. Hope to see you there!
April 21, 2025 at 3:06 PM
Join the Satija Lab for the seventh annual Single Cell Genomics Day on 4/25 — a free, one-day workshop featuring recent advances & practical insights in single cell genomics, designed for researchers at all levels.
All talks will be live-streamed via: satijalab.org/scgd25. Hope to see you there!
All talks will be live-streamed via: satijalab.org/scgd25. Hope to see you there!
Reposted by New York Genome Center
Adam Widman & collaborators at @nygenome.org led a study to evaluate a low-cost, error-corrected whole-genome sequencing method to detect cancer DNA & assess disease burden in individuals with melanoma and urothelial cancer. @mskcancercenter.bsky.social
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Error-corrected flow-based sequencing at whole-genome scale and its application to circulating cell-free DNA profiling - Nature Methods
This work integrates duplex sequencing with cost-effective Ultima sequencing to enhance the accuracy of whole-genome circulating cell-free DNA profiling.
www.nature.com
April 18, 2025 at 8:33 PM
Adam Widman & collaborators at @nygenome.org led a study to evaluate a low-cost, error-corrected whole-genome sequencing method to detect cancer DNA & assess disease burden in individuals with melanoma and urothelial cancer. @mskcancercenter.bsky.social
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by New York Genome Center
The New York Genome Center will receive $125 million from Simons Foundation International and the Carson Family Charitable Trust to continue its operations through 2029.
phlnthrp.com/4jfRPfs
#grantsroundup
phlnthrp.com/4jfRPfs
#grantsroundup
New York Genome Center Receives $125 Million to Continue Operations
Plus, the 1803 Fund pledged $75 million to Oregon groups that serve Black youths, and the Bezos Earth Fund and the Global Methane Hub will give $27.4 million to lower methane emissions through livesto...
phlnthrp.com
April 16, 2025 at 3:32 PM
The New York Genome Center will receive $125 million from Simons Foundation International and the Carson Family Charitable Trust to continue its operations through 2029.
phlnthrp.com/4jfRPfs
#grantsroundup
phlnthrp.com/4jfRPfs
#grantsroundup
Reposted by New York Genome Center
Super excited to share the first 3D genome paper from my lab @narjournal.bsky.social , led by my smart and hardworking student Carlos (joint with @LuLaboratory) with assists from a brilliant summer intern Narjis. (1/n) academic.oup.com/nar/article/...
pC-SAC: A method for high-resolution 3D genome reconstruction from low-resolution Hi-C data
Abstract. The three-dimensional (3D) organization of the genome is crucial for gene regulation, with disruptions linked to various diseases. High-throughpu
academic.oup.com
April 14, 2025 at 5:02 PM
Super excited to share the first 3D genome paper from my lab @narjournal.bsky.social , led by my smart and hardworking student Carlos (joint with @LuLaboratory) with assists from a brilliant summer intern Narjis. (1/n) academic.oup.com/nar/article/...