Genome Research
@genomeresearch.bsky.social
📤 7413
📥 142
📝 55
A leading peer-reviewed genomics journal.
https://genome.cshlp.org
Submit:
http://submit.genome.org
The new issue of
@genomeresearch.bsky.social
arch is now live. Follow the link to new research on somatic mutant alleles in bulk tumor samples, honey bee gut microbiota, and more!
tinyurl.com/Genome-Res-3...
10 days ago
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1
reposted by
Genome Research
David Lougheed
about 1 month ago
Work from my M.Sc. with
@guilbourque.bsky.social
is in this month's issue of Genome Research, detailing my short tandem repeat (STR) genotyping tool for long-read data! Article:
genome.cshlp.org/content/36/3...
STRkit:
github.com/davidloughee...
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The new issue of
@genomeresearch.bsky.social
is now live. Follow the link to new research on chromosome engineering in 8p syndrome, convergent evolution in arid rodents, and more!
tinyurl.com/Genome-Res-3...
about 2 months ago
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4
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The Editors of
@genomeresearch.bsky.social
are here! Looking forward to all of the great talks! 🧬
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about 2 months ago
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reposted by
Genome Research
Cold Spring Harbor Laboratory Press
2 months ago
The new issue of
@genomeresearch.bsky.social
is now live. Follow the link to new research on transposable elements in pancreatic cancer, genomic evolution in living fossils, and more!
tinyurl.com/Genome-Res-3...
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2
3
The new issue of
@genomeresearch.bsky.social
is now live. Follow the link to new research on transposable elements in pancreatic cancer, genomic evolution in living fossils, and more!
tinyurl.com/Genome-Res-3...
2 months ago
1
5
2
reposted by
Genome Research
UC San Diego School of Medicine
3 months ago
Associate professor of Medicine
@agoren.bsky.social
and graduate student Yuwei Cao's new method for an end-to-end single pot automated (spa) ChIP-seq made the cover of
@genomeresearch.bsky.social
! 🧬 Read their article, focused on developing spa-ChIP-seq, below 👇
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8
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reposted by
Genome Research
Alon Goren
3 months ago
Our new method for an end-to-end single pot automated (spa) ChIP-seq made the cover of
@genomeresearch.bsky.social
! A fun spa day for the DNA ;) (Sorry, I had to, please don’t tell my wife). Shoutout to my graduate student Yuwei Cao which led this effort amazingly!
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The new issue of
@genomeresearch.bsky.social
is now live. Follow the link to new research the 3D genome organization in breast cancer, assisted reproductive technology mutation rate, and more!
tinyurl.com/Genome-Res-3...
3 months ago
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5
reposted by
Genome Research
RECOMB Conference Series
5 months ago
This month,
@genomeresearch.bsky.social
publishes a special RECOMB issue highlighting algorithmic innovations in haplotype assembly and phasing, analysis of genomic variation and its association to phenotype, metagenomic analyses, and more. Link to full issue:
genome.cshlp.org/content/35/1...
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7
2
This month
@genomeresearch.bsky.social
publishes a special
@recombconf.bsky.social
issue highlighting algorithmic innovations in haplotype assembly and phasing, analysis of genomic variation and its association to phenotype, metagenomic analyses, and more.
genome.cshlp.org/content/35/1...
5 months ago
0
10
4
reposted by
Genome Research
Dávalos Lab
5 months ago
🧪New
#shrewcrew
#OA
@genomeresearch.bsky.social
📃shows how tiny shrews remain active in ❄️❄️! As it gets 🥶tiny mammals hibernate or migrate, but not shrews. They shrink, thus reducing their overall⚡️demand 👉🏽
genome.cshlp.org/content/earl...
1/4
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8
6
reposted by
Genome Research
MRC Centre for Global Infectious Disease Analysis
5 months ago
Surveillance getting GNASTy! Improving our ability to detect variants that haven’t been seen before! Optimizing nanopore adaptive sampling for pneumo surveillance in
@genomeresearch.bsky.social
👇
doi.org/10.1101/gr.2...
@imperialcollegeldn.bsky.social
@ox.ac.uk
@rebecca-and.bsky.social
@ebi.embl.org
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Optimizing nanopore adaptive sampling for pneumococcal serotype surveillance in complex samples using the graph-based GNASTy algorithm
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
https://doi.org/10.1101/gr.279435.124
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4
1
reposted by
Genome Research
MARTi Software
6 months ago
The MARTi paper has been published in
@genomeresearch.bsky.social
after several years of development!
genome.cshlp.org/content/earl...
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Real-time analysis and visualization of nanopore metagenomic samples with MARTi
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
https://genome.cshlp.org/content/early/2025/10/13/gr.280550.125
1
5
1
reposted by
Genome Research
Department of Biosciences, University of Oslo
5 months ago
New publication: "Loss of multilevel 3D genome organization during breast
#cancer
progression" with Roberto Rossini
@robomics.bsky.social
, Saleh Oshaghi, Jonas Paulsen
@jonnings.bsky.social
from
@biovitenskap.bsky.social
Published in Genome Research
@genomeresearch.bsky.social
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Loss of multilevel 3D genome organization during breast cancer progression
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
https://genome.cshlp.org/content/early/2025/10/09/gr.280791.125.abstract
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2
1
reposted by
Genome Research
Vikram Shivakumar
5 months ago
Really excited to see our new work in scaling Mumemto to any size pangenome published in Genome Research this morning. And right on cue with the great opportunity to present this work at
#GI2025
this week.
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5
#GI2025
Vikram Shivakumar from Ben Langmead's lab (
@benlangmead.bsky.social
) presents "MumemtoM - partitioned Multi-MUM finding for scalable pangenomics ". Now published in Genome Research
@genomeresearch.bsky.social
. Read full text here ➡️
tinyurl.com/Genome-Res-2...
5 months ago
0
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#GI2025
Ilias Georgakopoulos-Soares presents "Quadrupia - a comprehensive catalog of G-quadruplexes across genomes from the tree of life". Now published in Genome Research
@genomeresearch.bsky.social
Read full text here ➡️
tinyurl.com/Genome-Res-2...
5 months ago
0
4
2
#GI2025
Chirag Jain presents "Pangenome-based genome inference using integer programming". Now published in GenomeResearch
@genomeresearch.bsky.social
Read the full text here ➡️
tinyurl.com/Genome-Res-2...
5 months ago
0
5
1
#GI2025
Mile Sikic
@msikic.bsky.social
presents "Geometric deep learning framework for de novo genome assembly" Now published in GenomeResearch
@genomeresearch.bsky.social
Full text here ➡️
tinyurl.com/Genome-Res-2...
5 months ago
0
10
4
The new issue of
@genomeresearch.bsky.social
h is now live. Follow the link to new research on wheat centromere adaptation, Quadrupia - a G-quadruplex database, and more!
tinyurl.com/Genome-Res-3...
6 months ago
0
1
1
reposted by
Genome Research
Earlham Institute
6 months ago
💬 “It’s operationally very lightweight, you can use it in-field for taxonomic classification on a standard laptop, or undertake larger, complex analysis using HPC.” 💻🧬 Scientists at Earlham Institute introduce MARTi, a new tool for real-time
#nanopore
#metagenomics
.
@genomeresearch.bsky.social
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New software tool MARTi fast-tracks identification and response to microbial threats.
An open-source software tool that powers real-time analysis and visualisation of metagenomic data
https://buff.ly/SCLZckR
1
6
4
reposted by
Genome Research
Richard Leggett
6 months ago
Our MARTi
@nanoporetech.com
paper is now out in
@genomeresearch.bsky.social
after several years of development (particularly Ned Peel and Sam Martin). We'd love to hear from users about how you're using it, or suggestions for new features.
@earlhaminst.bsky.social
genome.cshlp.org/content/earl...
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Real-time analysis and visualization of nanopore metagenomic samples with MARTi
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
https://genome.cshlp.org/content/early/2025/10/13/gr.280550.125
0
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Submissions Due! Call for Papers: The Genetics and Genomics of Somatic Mosaicism
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6 months ago
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Call for papers deadline is quickly approaching! More information on the topic of interests can be found here:
tinyurl.com/Call-for-pap...
.
#ASHG25
#BOG25
#KSMosaicism25
#MITS25
#somaticmosaicism
6 months ago
0
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The new issue of
@genomeresearch.bsky.social
is now live. Follow the link to new research on microglia in neurodegenerative diseases, intron retention in nuclear RNA complexes, and more!
tinyurl.com/Genome-Res-3...
7 months ago
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1
Deadline extended to November 1st!
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7 months ago
0
3
1
reposted by
Genome Research
Call for Papers!
@genomeresearch.bsky.social
is now encouraging submissions for a Special Issue on The Genetics and Genomics of Somatic Mosaicism, Guest Edited by Drs. Gilad Evrony, Eunjung (Alice) Lee, and Raheleh Rahbari.
tinyurl.com/Call-for-pap...
#BOG25
#KSMosaicism25
#MITS25
#somaticmosaicism
12 months ago
0
10
3
reposted by
Genome Research
Simone Andrea Biagini 🏳️🌈
8 months ago
🚨 My new paper is out in the latest issue of
@genomeresearch.bsky.social
! 🧬 🧵 Check out my thread from yesterday for the details ⬇️ 👨💻 Open source codes also available on my
#GitHub
page!
#AcademicSky
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The new issue of
@genomeresearch.bsky.social
is now live. Follow the link to new research on HER2 isoform diversity and drug resistance in breast cancer, off-target site detection in prime editing, and more!
tinyurl.com/Genome-Res-3...
8 months ago
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7
0
reposted by
Genome Research
Rob Patro
8 months ago
🧬🖥️ Thrilled that our paper "Tree-based differential testing using inferential uncertainty for RNA-seq"
genome.cshlp.org/content/earl...
, led by
@noorpratap.bsky.social
, & in collab with
@mikelove.bsky.social
,
@fennecpaaaw.bsky.social
and Jason Fan is now accepted at
@genomeresearch.bsky.social
. 1/4
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Tree-based differential testing using inferential uncertainty for RNA-seq
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
https://genome.cshlp.org/content/early/2025/08/21/gr.279981.124.full.pdf+html
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reposted by
Genome Research
Stockholm University
8 months ago
By analyzing millions of messenger RNA molecules during the course of ALS, researchers have identified why certain nerve cells are resistant to the disease and what happens in the sensitive nerve cells when they are affected. New study in
@genomeresearch.bsky.social
#ALS
www.su.se/department-o...
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New research shows how nerve cells can be protected against ALS - Department of Biochemistry and Biophysics
New research shows how nerve cells can be protected against ALS - Department of Biochemistry and Biophysics
https://www.su.se/department-of-biochemistry-and-biophysics/news/new-research-shows-how-nerve-cells-can-be-protected-against-als-1.840567
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reposted by
Genome Research
CNAG
8 months ago
🙌 New advances on rare diseases! Within the Solve_RD,
@pacbio.bsky.social
HiFi long-read whole-genome sequencing has proven instrumental in uncovering previously undetectable genetic variants, leading to new diagnoses
genome.cshlp.org/content/35/4...
@genomeresearch.bsky.social
@erdera.bsky.social
0
4
1
The new issue of
@genomeresearch.bsky.social
search is now live. Follow the link to new research on oxygen stress and gene regulation in the brain, a new C. elegans reference genome, and more!
tinyurl.com/Genome-Res-3...
9 months ago
0
7
0
reposted by
Genome Research
Silvia Remeseiro Lab
9 months ago
Now out
@genomeresearch.bsky.social
this fantastic work in collaboration with Claudio Cantù's lab. About how
#Wnt
signalling activation induces
#CTCF
binding and formation of new
#chromatin
#loops
at
#CREs
of target genes.
genome.cshlp.org/content/earl...
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3
reposted by
Genome Research
Simone Andrea Biagini 🏳️🌈
9 months ago
🚨 Excited to share my new paper! We imputed 32,769 ultra-low coverage genomes from
#NIPS
🫃and show how our custom filtering (GDI) impacts ancestry and PGS analyses. Big thanks to the team behind this long and rewarding work! 🧬 📝 Now on
@genomeresearch.bsky.social
👇
genome.cshlp.org/content/earl...
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Genotype imputation from low-coverage data for medical and population genetic analyses
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
https://genome.cshlp.org/content/early/2025/07/22/gr.280175.124.abstract
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6
3
reposted by
Genome Research
Marlies Oomen
9 months ago
Very happy that this (last?) piece of my PhD time in the Dekker lab is now out in Genome Research!
genome.cshlp.org/content/earl...
@jobdekker.bsky.social
@pablonavarrolab.bsky.social
@genomeresearch.bsky.social
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Mitotic chromosomes harbor cell type– and species-specific structural features within a universal loop array conformation
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
https://genome.cshlp.org/content/early/2025/07/08/gr.280648.125
1
21
4
reposted by
Genome Research
Claudio Cantù
9 months ago
A 6-year long study from the Lab is finally out
@genomeresearch.bsky.social
Mastered by
@annanordin.bsky.social
in collaboration with Chaitali Chakraborty from
@remeseiro-lab.bsky.social
Why is our work Important? Discover it in the quick Bluetorial 👇
genome.cshlp.org/content/earl...
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Wnt signaling activation induces CTCF binding and loop formation at cis-regulatory elements of target genes
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
https://genome.cshlp.org/content/early/2025/07/13/gr.279684.124.full.pdf+html
1
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reposted by
Genome Research
Cold Spring Harbor Laboratory Press
10 months ago
The new issue of
@genomeresearch.bsky.social
is now live. Follow the link to new research on single-cell multiomics of muscle response to endurance exercise, a method for Nanopore data compression, and more!
tinyurl.com/Genome-Res-3...
0
7
2
The new issue of
@genomeresearch.bsky.social
is now live. Follow the link to new research on single-cell multiomics of muscle response to endurance exercise, a method for Nanopore data compression, and more!
tinyurl.com/Genome-Res-3...
10 months ago
0
2
1
reposted by
Genome Research
Tim
10 months ago
Making the rounds here on behalf of
@lsajournal.org
! Great visit with my colleagues at
@genesdev.bsky.social
and
@genomeresearch.bsky.social
today to discuss our manuscript transfer procedures, towards better serving authors. And admiring all the
@cshlpress.bsky.social
books 😍
0
2
1
reposted by
Genome Research
Ville Paakinaho
11 months ago
Happy to share that our latest research study is out now
@genomeresearch.bsky.social
Androgen receptor-mediated assisted loading of the glucocorticoid receptor modulates transcriptional responses in prostate cancer cells
genome.cshlp.org/content/earl...
pubmed.ncbi.nlm.nih.gov/40456604/
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Androgen receptor-mediated assisted loading of the glucocorticoid receptor modulates transcriptional responses in prostate cancer cells
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
https://genome.cshlp.org/content/early/2025/06/02/gr.280224.124.abstract
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The new issue of
@genomeresearch.bsky.social
is now live. Follow the link to new research on TP53 regulation of transposable elements in cancer, gut microbiome–associated protists, and more!
tinyurl.com/Genome-Res-3...
11 months ago
1
8
4
reposted by
Genome Research
The Tattooed Professor
about 1 year ago
Glad we found the perfect home in a community journal including a read and publish open access agreement. "Long-read genomics reveal extensive nuclear-specific evolution and allele-specific expression in a dikaryotic fungus"
genome.cshlp.org/content/earl...
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Long-read genomics reveal extensive nuclear-specific evolution and allele-specific expression in a dikaryotic fungus
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
https://genome.cshlp.org/content/early/2025/04/10/gr.280359.124.full.pdf+html
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reposted by
Genome Research
Stephanie Hicks
11 months ago
New paper out in
@genomeresearch.bsky.social
on using contrastive self-supervised learning for spatial domain detection with multi-omics data! Huge congratulations to Jianing Yao and coauthors Jinglun Yu, Brian Caffo Stephanie Page &
@martinowk.bsky.social
! 🧬 🖥️ 🧪
doi.org/10.1101/gr.2...
1
20
4
Last night of another great
#BOG25
! Thanks to everyone who came to chat with us at our Meet the Editors sessions. Had a great year putting together this special double issue! Now, on to the next!
#somaticmosaicism
@genomeresearch.bsky.social
@cshlmeetings.bsky.social
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11 months ago
1
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This Wednesday and Friday, meet the editors of
@genomeresearch.bsky.social
. We will be available to discuss your latest research and to answer any questions about the journal. In addition, hear about our upcoming issue on Somatic Mosaicism.
#BOG25
12 months ago
0
5
0
reposted by
Genome Research
@lynnfellman.bsky.social
12 months ago
Prof Dan Mishmar's latest paper is on the cover of CSHL’s “Genome Research” Journal — “Vertebrates show coordinated elevated expression of mitochondrial and nuclear genes after birth.” (My artwork on the cover).
@genomeresearch.bsky.social
@cshlmeetings.bsky.social
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Call for Papers!
@genomeresearch.bsky.social
is now encouraging submissions for a Special Issue on The Genetics and Genomics of Somatic Mosaicism, Guest Edited by Drs. Gilad Evrony, Eunjung (Alice) Lee, and Raheleh Rahbari.
tinyurl.com/Call-for-pap...
#BOG25
#KSMosaicism25
#MITS25
#somaticmosaicism
12 months ago
0
10
3
reposted by
Genome Research
CSHL Meetings
12 months ago
The 38th annual Biology of Genomes meeting starts TONIGHT! Make sure to use
#BOG25
for all of your posts and have a great week 🧬
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