Guest Post - From Open Access to Preprints: Are We Repeating the Same Mistakes in Scholarly Publishing? - The Scholarly Kitchen Guest blogger Jonny Coates looks at Richard Poynder's post-mortem on the Open Access movement, and uses it as a framework to ask questions about the future of preprints.

“the preprint movement [is] a response to the failures of the open access movement…All the more reason to be mindful of our past missteps” scholarlykitchen.sspnet.org/2026/04/14/g... via @madubs.bsky.social

Tumour promotion through the lens of evolution Nature - This Review revisits tumour initiation and promotion in light of clonal diversity and the presence of cancer driver mutations in normal tissues, aiming to understand mechanisms that enable...

Tumor promotion through the lens of evolution

This review grew out of many long conversations, shared ideas, and lively discussions

It has been a real pleasure to think together with Allan, Paul, Eve, and Abel about how tumours develop and how carcinogens shape cancer risk

rdcu.be/fdC2J

Very happy to land in beautiful Bergen to attend the ELIXIR Norway annual All Hands Meeting @elixir-europe.org. Three exciting days ahead discussing ELIXIR Norway's contributions to support life science researchers with bioinformatics services, data management tools, and secure e-infrastructure.

Proud to have taken a part of this great work!

Excited to share that our latest research has been published in @narjournal.bsky.social
Read the article here: academic.oup.com/nar/article/...
Congratulations to Patrizia Nothnagel and many thanks to all people involved including Nolwenn Briand, Bjørn Steen Skålhegg and @amathelier.bsky.social.

👇 Still a couple of days to apply to join our amazing team as a Research Scientist / Software Developer.

Apply if you want to build and maintain reproducible pipelines for large-scale genomic analysis to support our study of breast cancer cis-regulatory signatures and JASPAR, among other things.

The TFBS tracks for 8 species using JASPAR 2026 TF binding profiles are now available as native tracks on the UCSC genome browser @genomebrowser.bsky.social !

genome.ucsc.edu/goldenPath/n...

Mechanisms linking cytoplasmic decay of translation-defective mRNA to transcriptional adaptation Transcriptional adaptation (TA) is a genetic robustness mechanism through which mutant messenger RNA (mRNA) decay induces sequence-dependent up-regulation of so-called adapting genes. How cytoplasmica...

Ever notice that when one gene is disrupted, its orthologs get upregulated? This phenomenon, known as transcriptional adaptation, has been controversial and mysterious - glad to see that we are starting to learn how it works.

📢 Hiring! Our group @ncmbm.bsky.social seeks a Research Scientist contributing to:
• Reproducible pipelines for large-scale genomics
• cisreg signature analysis in breast cancer
• Continued development of JASPAR
• Cross-disciplinary collaboration

Apply now 👉
www.jobbnorge.no/en/available...

Looking forward to two days of talks and discussions around research and innovation in Life Science in Norway!

@uio.no

Let's get in touch then to see how/if it would work

Let me know if you plan to come to Oslo/Norway.

Looking forward to participating in this symposium! Thanks for the invitation.

We are thrilled to announce the first official release (v0.1.8) of #𝗯𝗲𝗱𝗱𝗲𝗿, the successor to one of our flagship tool, #𝗯𝗲𝗱𝘁𝗼𝗼𝗹𝘀! Based on ideas we conceived of long ago (!), this was achieved thanks to the dedication of Brent Pedersen.

1/n

AlphaGenome is out in @nature.com today along with model weights! 🧬

📄 Paper: www.nature.com/articles/s41...

💻 Weights: github.com/google-deepm...

Getting here wasn’t a straight path. We discussed the story behind the model, paper & API in the following roundtable: youtu.be/V8lhUqKqzUc

Thanks to
@ferhatay.bsky.social
and Aly Khan, we’re excited to announce a new chapter for RECOMB-RSG 2026. After years with ISCB/DREAM, we are transitioning to an official RECOMB satellite meeting (May 25 in Thessaloniki). recomb-rsg.github.io

RECOMB-RSG 2026
Deadline: Feb 15.
Tracks for: Preprints, Highlights (Recent Papers), Lightning talks
Details: recomb-rsg.github.io

3/3

This move supports a "discussion-first" format. As the field moves toward complex genomics and system-level integration, the community needs a venue designed for deep technical exchange and diverse perspectives.

2/3

Excited to see the upcoming new chapter for RECOMB-RSG 2026. After years with ISCB/DREAM, it is transitioning to an official RECOMB satellite meeting (May 25 in Thessaloniki). recomb-rsg.github.io

1/3

You swear at the code.
You’re sure the computer’s being stupid.
But it’s not the computer. It never was. 🧵

Took this photo 12 years ago

inMOTIFin: a lightweight end-to-end simulation software for regulatory sequences AbstractSummary. The accurate development, assessment, interpretation, and benchmarking of bioinformatics frameworks for analyzing transcriptional regulato

inMOTIFin is a modular, user‑friendly Python toolkit for simulating and modifying regulatory DNA sequences. The code is open‑source via PyPI and Docker, with comprehensive docs.
academic.oup.com/bioinformati...

inMOTIFin is now published in Bioinformatics! 🎉

It lets you generate random sequences and TF motifs, and insert motif instances with custom spacing, co‑occurrence and orientation. Use cases for de novo motif discovery, cooperative TF binding, and DL explainability.

academic.oup.com/bioinformati...

Start your independent as an ELISIR fellow right after your PhD, in one of the most terrific places in Europe !

Some interesting points raised here. I'm personally in favor of applications to be evaluated for soundness and feasibility, followed by lottery.

Point of no returns: researchers are crossing a threshold in the fight for funding www.nature.com/articles/d41...

JASPAR recognised as an ELIXIR Core Data Resource - NCMBM - Norwegian Centre for Molecular Biosciences and Medicine ELIXIR has announced the life science data resources selected in its latest evaluation round for ELIXIR Core Data Resources (CDRs) and ELIXIR Deposition Databases. Among the six newly approved Core Da...

@amathelier.bsky.social from NCMBM, says: “ I am very proud to see JASPAR officially recognised as a Core Data Resource by ELIXIR and it is wonderful to see JASPAR join the ranks of other well-established European resources."

Read more about this achievement: tinyurl.com/4r6zntvw

Recognition as an @elixir-europe.org Core Data Resource reinforces JASPAR’s role as a trusted, FAIR reference for TF-based gene regulation research.
Proud of this achieved milestone. A big thanks to all collaborators over the years and to the community.

E. coli transcription factors regulate promoter activity by a universal, homeostatic mechanism Transcription factors (TFs) may activate or repress gene expression through an interplay of different mechanisms, including RNA polymerase (RNAP) recruitment, exclusion, and initiation. However, depen...

E. coli transcription factors regulate promoter activity by a universal, homeostatic mechanism | Science www.science.org/doi/10.1126/...

Two new chapters from my free online book in human genetics out this weekend!
These complete Part 3 of the book, on human population structure and history:
3.3: Human prehistory [separate thread]
3.4: Ancient DNA: a genetic time capsule [this thread]
web.stanford.edu/group/pritch...

An integrated view of the structure and function of the human 4D nucleome - Nature The 4D Nucleome Project demonstrates the use of genomic assays and computational methods to measure genome folding and then predict genomic structure from DNA sequence, facilitatin...

A major output of the 4D Nucleome project appeared today. This is the joint effort of many scientists working together and (publicly) sharing data and results for several years. We hope this is of interest to many genome biologists!

www.nature.com/articles/s41...