Linda Koch
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linkonrg.bsky.social
Linda Koch
@linkonrg.bsky.social
2.2K followers 810 following 79 posts
Chief Editor @ Nature Reviews Genetics (‪@natrevgenet.nature.com‬)
Half 🇩🇪, half 🇫🇷, raised in 🇵🇹, now in 🇬🇧.
Opinions my own.
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linkonrg.bsky.social
Linda Koch @linkonrg.bsky.social · Jan 21
Are you an early-career researcher (PhD, postdoc, junior PI) who has published a cool new tool or method? Share your Tools of the Trade! #ToolsoftheTrade articles showcase new computational or technological advancements in genetics and genomics go.nature.com/3CkAWjr
Email nrg@nature.com
Swiss Army knife opened with various tools and labelled with the letters ACGT next to a cut in a double-stringed wire reminiscent of a DNA helix
linkonrg.bsky.social
Preprint site arXiv is banning computer-science reviews: here’s why www.nature.com/articles/d41...
Preprint site arXiv is banning computer-science reviews: here’s why
The repository is taking steps to tackle a surge in low quality, AI-generated content.
www.nature.com
November 11, 2025 at 8:43 AM
linkonrg.bsky.social
It was a fun one!
November 3, 2025 at 11:37 PM
Reposted by Linda Koch
mikeinouye.bsky.social
New commentary from @katholt.bsky.social just dropped 😊
November 3, 2025 at 9:43 PM
Reposted by Linda Koch
natureportfolio.nature.com
The findings of a study in Nature shed light on germline selection dynamics and highlight a broader increased disease risk for children born to fathers of advanced age than previously appreciated. go.nature.com/4h5BglX 🧬 🧪
This is figure 1, which shows mutational burden and signature analysis in sperm and matched blood.
October 12, 2025 at 7:14 PM
Reposted by Linda Koch
natureportfolio.nature.com
A reminder that you can follow all of our journals with one click by using our starter pack!
March 17, 2025 at 6:37 PM
linkonrg.bsky.social
@heykatray.bsky.social 🫶
a boy and a girl are sitting at a desk and the girl says " it 's october 3rd "
ALT: a boy and a girl are sitting at a desk and the girl says " it 's october 3rd "
media.tenor.com
October 3, 2025 at 9:23 AM
linkonrg.bsky.social
gofund.me/a6fca9629
Donate to Support Rick's Battle with Cancer, organized by Melanie Tiffen
Help Rick fight! My brother-in-law 

Rick has been diagnosed with metastatic … Melanie Tiffen needs your support for Support Rick's Battle with Cancer
gofund.me
October 2, 2025 at 8:03 PM
linkonrg.bsky.social
This was a really nice review to work on:
A genomic view of Earth’s biomes go.nature.com/3VTLImU by Gitta Szabó, Emiley A. Eloe-Fadrosh, Jennifer Pett-Ridge & Tanja Woyke
A genomic view of Earth’s biomes - Nature Reviews Genetics
Genome-wide approaches have uncovered the vast microbial and viral diversity across ecosystems. This Review explores advances in metagenomics, single-cell sequencing and functional profiling to elucid...
go.nature.com
September 17, 2025 at 11:05 AM
linkonrg.bsky.social
🎉 25 years of NRG! Feels a bit bonkers to think I’ve been at the helm for almost 12 years 🤯 Where did the time go???
natrevgenet.nature.com Nature Reviews Genetics @natrevgenet.nature.com · Sep 16
Happy 25th anniversary to us! We're celebrating the journal's birthday with a bumper issue: go.nature.com/3VSbPdW
Read more in our editorial "Making sense of the regulatory genome": go.nature.com/3IbWP7F
And don't miss our new collection on "Long-read sequencing": go.nature.com/41Yy1Xs
September 16, 2025 at 7:37 PM
Reposted by Linda Koch
garushyants.bsky.social
hey bluesky 👋 visa hurdles mean I’m looking for opportunities outside the US. I’m a computational biologist (bacterial + phage genomics, postdoc in Koonin’s group @ NIH). I am interested in teaming up on funding apps. reach out if this resonates!
September 15, 2025 at 5:26 PM
Reposted by Linda Koch
alexdemendoza.bsky.social
Very happy to have contributed to this review on "non-CG" #methylation in animals now out in @natgenet.nature.com. Working again with @obog.bsky.social and Tirsa is always a pleasure. We think this not so well studied form of methylation should be more widely considered, please read: rdcu.be/eFAEk
Non-CG DNA methylation in animal genomes
Nature Genetics - This Review discusses noncanonical DNA methylation (mCH) in animal genomes and highlights the remaining need to clarify whether mCH represents a conserved regulatory layer or a...
rdcu.be
September 11, 2025 at 10:11 AM
Reposted by Linda Koch
stephenturner.us
Review: Transcriptomics in the era of long-read sequencing www.nature.com/articles/s41... (read free: rdcu.be/efBjP) 🧬🖥️🧪
March 29, 2025 at 8:57 AM
Reposted by Linda Koch
kurianlab.bsky.social
There is a lack of general terminology for translated regions that does not depend on the properties of their products or their sequence.

Spearheaded by Pavel (Pasha) Baranov, this primer provides a unifying nomenclature for translation units: *Translon*

www.nature.com/articles/s41...
Translon: a single term for translated regions - Nature Methods
Nature Methods - Translon: a single term for translated regions
www.nature.com
September 2, 2025 at 9:21 AM
Reposted by Linda Koch
natureportfolio.nature.com
A Review in Nature Reviews Genetics discusses how genomic advances have enhanced our understanding of schizophrenia, bipolar disorder and major depressive disorder, which could address limitations in diagnostic frameworks and future treatment strategies. go.nature.com/44bKTuy 🧬 🧪
This is figure 1, which shows a summary of genomic findings for schizophrenia, bipolar disorder and depression.
June 23, 2025 at 1:31 AM
Reposted by Linda Koch
natrevgenet.nature.com
Autophagy genes in biology and disease go.nature.com/4lnHiiT #Review by Hayashi Yamamoto, Sidi Zhang & Noboru Mizushima
Autophagy genes in biology and disease - Nature Reviews Genetics
Macroautophagy and microautophagy involve characteristic membrane dynamics regulated by autophagy-related proteins to degrade cytoplasmic material in lysosomes. In this Review, the authors summarize r...
go.nature.com
June 26, 2025 at 11:07 AM
Reposted by Linda Koch
natrevgenet.nature.com
Methods and applications for single-cell and spatial multi-omics go.nature.com/3GkzmzZ #Review by Katy Vandereyken, Alejandro Sifrim, @bernthie.bsky.social & Thierry Voet
Free to read here: rdcu.be/c6JjL
Methods and applications for single-cell and spatial multi-omics
Nature Reviews Genetics - In this Review, the authors discuss the latest advances in profiling multiple molecular modalities from single cells, including genomic, transcriptomic, epigenomic and...
rdcu.be
June 27, 2025 at 8:30 AM
Reposted by Linda Koch
natrevgenet.nature.com
Targeted genome-modification tools and their advanced applications in crop breeding go.nature.com/3T8J8bs #Review by Boshu Li, Chao Sun, Jiayang Li & Caixia Gao
Free to read here: rdcu.be/dFHti
Targeted genome-modification tools and their advanced applications in crop breeding
Nature Reviews Genetics - Targeted genome modification using CRISPR–Cas genome editing, base editing or prime editing is driving base research in plants and precise molecular breeding. The...
rdcu.be
June 27, 2025 at 9:29 AM
Reposted by Linda Koch
natrevgenet.nature.com
If you enjoyed our RNA splicing collection, this @natrevdrugdiscov.nature.com Review may be of interest:
Protein isoform-centric therapeutics: expanding targets and increasing specificity go.nature.com/44HDClo
July 14, 2025 at 8:27 AM
Reposted by Linda Koch
natrevgenet.nature.com
Evolution of splicing model architectures go.nature.com/4eweliE
Figure from our recent Review: From computational models of the splicing code to regulatory mechanisms and therapeutic implications (free to read here: rdcu.be/dVNV4)
a, Early models built sequence motifs to describe the consensus sequences of individual core splicing elements, such as splice sites (SSs) and intronic and/or exonic enhancers and silencers. Statistical and machine-learning models were built to output the probability of a novel sequence acting as a core splicing element. The sequence logos shown for 5′SS and 3′SS were generated from Human hg38 RefSeq annotations (code available at https://www.github.com/ulelab/splicelogos). b, As our understanding of splicing mechanisms progressed, expert-selected features were extracted from sequences and used to train integrative models to predict splicing outcomes. c, With the advent of deep-learning, models could jointly learn features directly from raw sequence input. Although theoretically, sequence context could be as large as shown in part d, in practice smaller windows of up to 30 kb have been used. d, Supervised models with convolutional and transformer layers produce multimodal genome-wide data. These models use a much larger sequence context and can predict genome-wide data including RNA sequencing coverage, which can be further processed to evaluate splicing. e, By learning how to reconstruct partially masked genomic sequences across multiple species, self-supervised masked language models capture evolutionarily conserved sequence elements and their functional context in a very generic and flexible fashion. The informative numerical representations obtained by large language models can be used for splicing prediction tasks. Here 3′SS within different sequence contexts from multiple species are shown aligned for easier interpretation, but in practice sequences do not have to be aligned. Current masked language models with application to splicing use variable context windows from 1,000 to 1 million base pairs; however, it is currently unclear whether larger context windows confer better performance
July 2, 2025 at 10:21 AM
linkonrg.bsky.social
What gif pops up when you type your name
August 15, 2025 at 6:40 AM
Reposted by Linda Koch
natrevgenet.nature.com
Our August 2025 issue is now live: go.nature.com/4kIXzOI
Topics include: systems biology in the single-cell era; ADAR1-mediated RNA editing; retrotransposable element reactivation and its biological impact; transcriptional condensates as temporal signal integrators; X-linked competition
July 18, 2025 at 8:05 AM
Reposted by Linda Koch
dougfowler.bsky.social
Interested in using functional data to understand clinical variants? Been hunting for a good review of the topic? We just wrote one! rdcu.be/exaEU
Multiplexed assays of variant effect for clinical variant interpretation
Nature Reviews Genetics - Multiplexed assays of variant effect (MAVEs) are highly scalable experimental approaches used to generate functional data for genetic variants. In this Review, McEwen et...
www.nature.com
July 21, 2025 at 7:34 PM
Reposted by Linda Koch
simrouxvirus.bsky.social
We (with Clement Coclet, not on Bsky) had the chance to work on a broad "state of viromics" review. We tried to use this to give an overview of how the field changed over the last ~ 15 years, and also what we think are some of the major remaining challenges. Full-text access at -> rdcu.be/excHt
July 22, 2025 at 3:06 PM
Reposted by Linda Koch
joaoascensao.bsky.social
New review article with @mmdesai.bsky.social is out today! Grateful for the opportunity to contribute something we hope will serve the community well
July 21, 2025 at 5:30 PM
Reposted by Linda Koch
genomicsengland.bsky.social
More equitable methods are needed to ensure genomic research benefits everyone fairly, according to a new review article in Nature Reviews Genetics involving Genomics England researchers.

Find out more: www.nature.com/articles/s41...

@natrevgenet.nature.com
www.nature.com
May 15, 2025 at 4:24 PM