iiinova — where your digital self keeps evolving

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Fritz Sedlazeck @sedlazeck.bsky.social · 10/03/2026

Join us at our 8th Hackathon @bcmhgsc.bsky.social ! Registration: forms.gle/N4FDxuq34g5J... Dates: 25-28th Aug 2026 Location: Hybrid (online + in Houston) We are going to work on #bioinformatics problems that will be reported in F1000 publication. Come and join us! @dcgenomics.bsky.social

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Structural Bioinformatics & Network Biology Lab @sbnblab.bsky.social · 17/12/2025

🚨 WE ARE HIRING! 🚨 The Structural Bioinformatics and Network Biology lab at @irbbarcelona.org is looking for 3 new members to join us in Barcelona! We’re scaling up our work in #GenAI, #DrugDiscovery, and #CompBio. Details below! 🧵👇

Job posting image saying "We're Hiring!" followed by list of open positions which include Research Associate in Generative AI for Drug Discover, Postdoctoral Fellow in Multi-omics & Biological Data Sciences, and Computational Biology Developer.

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DNAnexus, Inc. @dnanexus.bsky.social · 25/02/2025

Our next roundtable covers the challenges & strategies for integrating vast, multi-modal datasets into their clinical testing workflows. hello.dnanexus.com/webinar/inno... @dcgenomics.bsky.social @labcorp.bsky.social @premalshah.bsky.social h.bsky.social @myome.com

Live webinar: Innovations in Clinical Testing for Oncology & Rare Diseases. Taking place on march 6th at 11am ET.

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Hannah Long @hannahlong.bsky.social · 21/02/2025

📣 One week left for early bird registration and abstract submission for the 'Hidden Cell, Dark Genome' conference 3-4th April in Edinburgh. Regulatory functions of the dark genome, uncharted proteins & RNA complexity, cellular diversity, and atomic structures at the cellular scale 🧬! Join us #HCDG25

institute-genetics-cancer.ed.ac.uk

Hidden cell dark genome 2025

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DNAnexus, Inc. @dnanexus.bsky.social · 06/02/2025

Our next roundtable explores challenges in clinical testing for #oncology & #raredisease including how to integrate & analyze multi-modal datasets. Register today: hello.dnanexus.com/webinar/inno... @dcgenomics.bsky.social @labcorp.bsky.social @premalshah.bsky.social @myome.com

Live Webinar: Innovations in Clinical Testing for Oncology & Rare Diseases. Taking place March 6th at 11am ET

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Ben Busby @dcgenomics.bsky.social · 31/01/2025

If you use python — codon (an accelerator) is now fully open source! Check it out here: www.exaloop.io/blog/codon-2...

exaloop.io

Codon in 2025: New compiler-optimized NumPy implementation. Switching to an open source license. | Exaloop

Learn more

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Itai Yanai @itaiyanai.bsky.social · 31/01/2025

Is it cheating to explore a dataset for things you did not specifically hypothesize when creating it? We discussed this today at the Postdoc Night Science NYC session. It’s not cheating! The point is make discoveries & then test them in day science. Use this night science trick!

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Albert Vilella, PhD. @albertvilella.bsky.social · 28/01/2025

In #Diagnostics news, Natera $NTRA MRD study demonstrates potential to resurrect failed adjuvant drugs (celecoxib, an NSAID drug) for people with stage III colon cancer. Researchers used Signatera testing with a 16 targets personalized panel.

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Element Biosciences @elembio.bsky.social · 27/01/2025

“We are boldly moving towards a future where fast, affordable, and accurate integrated #multiomics measurements from the same sample and the same instrument become the new standard.” 🧬 Read our CEO Molly He’s perspective on what 2025 has in store for the NGS industry in GEN: bit.ly/4acTn6e

bit.ly

2025 Trends: NGS

This dynamic field has seen tremendous change in recent years. Leaders share their perspectives on what trends we can expect in 2025.

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Jonathan Eisen @phylogenomics.bsky.social · 18/01/2025

So my kids have been going through their old things like books and toys and I have a collection of very very lightly used stuffed animals I want to donate somewhere. Anyone know of a place in the Davis/Sacramento area that takes very lightly used stuffed animals?

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Carnegie Mellon University Libraries @library.cmu.edu · 16/01/2025

Hackathon! Register by 2/15: guides.library.cmu.edu/hackathon "Machine learning and AI approaches to multimodal problems in computational biology." March 3-5. Hosted by CMU Libraries, @dnanexus.bsky.social + @dcgenomics.bsky.social at @carnegiemellon.bsky.social in PGH (virtual option available)

Registration is open! Machine learning and AI approaches to multimodal problems in computational biology. March 3-5, 2025. Hosted by CMU Libraries and DNAnexus.

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bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 12/01/2025

TFBSFootprinter: a multiomics tool for prediction of transcription factor binding sites in vertebrate species www.biorxiv.org/content/10.1101/202…

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Stephen Turner @stephenturner.us · 12/01/2025

I wrote a short post on writing code in unfamiliar territory with AI. I used Claude to build a Chrome extension to add a post-to-Bluesky button on bioRxiv. I've never written Javascript or a Chrome extension before. It took 5 minutes. doi.org/10.59350/rwc...

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Element Biosciences @elembio.bsky.social · 09/01/2025

🌱 Don’t miss our workshop at PAG 2025! Dr. Elinor Karlsson of the Broad Institute will share how AVITI™ & Trinity™  #sequencing unlocks novel insights into clonal hematopoiesis in at-risk dogs, including those exposed to the 2023 East Palestine, Ohio derailment. bit.ly/3DQogkC

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Iddo Friedberg 🏁 𐤏𐤃𐤅 @iddux.bsky.social · 08/01/2025

TIL 0.0.0.0 is the EC number for "spontaneous reaction." www.brenda-enzymes.org/all_enzymes....

brenda-enzymes.org

All enzymes - BRENDA Enzyme Database

BRENDA - The Comprehensive Enzyme Information System

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Melanie Mitchell @melaniemitchell.bsky.social · 08/01/2025

An incredible opportunity for the right person: The Santa Fe Institute is seeking applications for full-time resident faculty positions at all academic levels For me, this has been the best possible job ever. More info here: santafe.edu/about/jobs/r...

santafe.edu

sfiscience

SFI seeks applications for full-time, 12-month resident faculty positions at all academic levels.

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Element Biosciences @elembio.bsky.social · 08/01/2025

We’re looking forward to next week’s J.P. Morgan Healthcare Conference in SF! Our CEO Molly He, CTO Michael Previte, and CFO Logan Zinser are presenting 📅 8:30 am on Monday, January 13, recapping our busy 2024 and sharing our plans for 2025. bit.ly/4j9lozv #JPM25

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Albert Vilella, PhD. @albertvilella.bsky.social · 09/01/2025

In #CancerDx news, Natera's $NTRA Oncology test volumes rise up considerably in 2024. Signatera's growth outpacing early trailblazers like Foundation Medicine

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bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 07/01/2025

Catalyzing computational biology research at an academic institute through an interest network www.biorxiv.org/content/10.1101/202…

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Scott McGrath @smcgrath.phd · 03/01/2025

🧪 A JAMA Oncology study highlights Deep-IO AI as a superior predictor for lung cancer immunotherapy response, surpassing traditional markers like PD-L1. Experts see it as a step toward personalized treatment. 🩺🖥️ #MLSky

medpagetoday.com

AI Model Has Promise for Predicting Checkpoint Inhibitor Activity in NSCLC

Score based on pathology images an independent predictor of PFS, OS

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Element Biosciences @elembio.bsky.social · 30/12/2024

Exciting to see this paper accepted! This is a great demonstration of the utility of high accuracy #sequencing on #AVITI to unlock additional insights from #singlecell data. #Genomics

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bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 31/12/2024

ProteoPlotter: an executable proteomics visualization tool compatible with Perseus www.biorxiv.org/content/10.1101/202…

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Titus Brown @titus.idyll.org · 29/12/2024

Curious - What are (good / personal ;)) software suggestions for predicting metabolomic profiles from a metagenome? Thanks!

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Titus Brown @titus.idyll.org · 30/12/2024

Hello everyone, the MBL Gene Regulatory Networks for Development course still has openings for its 2025 offering, Apr 6-18. We’d love to receive some more applications! The deadline is Jan 3, but if you start the application by then and get us the letters later, we will be happy to consider you!

mbl.edu

Gene Regulatory Networks for Development | Marine Biological Laboratory

This course introduces the concepts of Gene regulatory networks (GRNs), and teaches experimental and computational methods used to study them, through highly interactive lectures, discussions, group p...

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James Pirruccello 🎃🦇🧹 @jamespirruccello.com · 24/12/2024

I think ModernBERT from @howard.fm @benjaminwarner.dev is pretty exciting. Too many people have been bringing transformer-decoders to a transformer-encoder fight, and this might help reset things a bit. huggingface.co/blog/modernb...

huggingface.co

Finally, a Replacement for BERT: Introducing ModernBERT

We’re on a journey to advance and democratize artificial intelligence through open source and open science.

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Stephen Turner @stephenturner.us · 24/12/2024

Unicore enables scalable and accurate phylogenetic reconstruction with structural core genes www.biorxiv.org/content/10.1101/202… 🧬🖥️🧪 github.com/steineggerlab/unicore

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Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 21/12/2024

I really believe more folks should start off staring at a kinship matrix rather than STRUCTURE, PCA, etc. Such a rich visual of the data.

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Ben Busby @dcgenomics.bsky.social · 19/12/2024

Non-science post of the month: just made banh mi on grits. Would recommend 10/10.

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Stephen Turner @stephenturner.us · 12/12/2024

Published: Movi: A fast and cache-efficient full-text pangenome index www.cell.com/iscience/ful... 🧬🖥️🧪

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Anshul Kundaje @anshulkundaje.bsky.social · 12/12/2024

Also want to point to this other recent preprint that also shows that optimized ab-initio CNN models beat DNALMs even on the (relatively pointless) surrogate tasks used in the DNALM papers. CNNs also beat several other foundation models in other domains. arxiv.org/abs/2411.02796 #bioMLeval

arxiv.org

Specialized Foundation Models Struggle to Beat Supervised Baselines

Following its success for vision and text, the "foundation model" (FM) paradigm -- pretraining large models on massive data, then fine-tuning on target tasks -- has rapidly expanded to domains in the ...

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Brian Krueger, PhD @h2so4hurts.bsky.social · 02/12/2024

Hi All! I created a new feed for all things Omics! Get your posts on it by including a 🧬 + any other omics related emoji - 🧪🧫🔬☣️🖥️💉💊 (I'll be lightly curating this feed - like to remove porn, etc) bsky.app/profile/did:...

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Theral Timpson @theraltimpson.bsky.social · 30/11/2024

Used Up All the Turkey Yet? open.substack.com/pub/fivewith...

open.substack.com

Used Up All the Turkey Yet?

Turkey Barley Soup Recipe

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Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 28/11/2024

Interested in bioinformatics method development for proteins, structures or metagenomic analysis? Please check out my lab’s starter pack! 🔗 go.bsky.app/VJhXcSs

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Alicia Oshlack @aliciao.bsky.social · 29/11/2024

Happy to see our Damsel @bioconductor.bsky.social package published in Bioinformatics. Great work putting together this DamID sequencing and package from student Caitlin Page. Thanks to collaborators too @lonsbio.bsky.social academic.oup.com/bioinformati...

academic.oup.com

Damsel: analysis and visualisation of DamID sequencing in R

AbstractSummary. DamID sequencing is a technique to map the genome-wide interaction of a protein with DNA. Damsel is the first Bioconductor package to prov

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Phillip Compeau @phillipcompeau.bsky.social · 25/11/2024

Computational biology is not the future of biology. It's the present of biology.

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Stephen Turner @stephenturner.us · 25/11/2024

PanKB: An interactive microbial pangenome knowledgebase for research, biotechnological innovation, and knowledge mining academic.oup.com/nar/advance-articl… 🧬🖥️🧪

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Element Biosciences @elembio.bsky.social · 25/11/2024

Download our recent poster from #ASHG2024 to learn how our Trinity™ workflow expands what’s possible on a benchtop platform by eliminating or integrating post-hybridization steps onboard an #AVITI system while providing significant performance advantages. View the poster: bit.ly/4iggAIq #Genomics

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Eric Fauman (he/him) @ericfauman.bsky.social · 25/11/2024

Beats closest gene! @jengreitz.bsky.social @anshulkundaje.bsky.social And others that I can't find on bluesky. But if you're here let me know so I can follow you!

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Nuria Lopez-Bigas @nlbigas.bsky.social · 25/11/2024

We recently announced a dual new release of intOGen and boostDM Computational analysis of 33,218 tumor genomes to identify cancer genes and driver mutations ➡️ Compendium of Cancer Driver Genes - www.intogen.org ➡️ In Silico Saturation Mutagenesis of Cancer Genes - www.intogen.org/boostdm

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Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 23/11/2024

Our Big Fantastic Virus Database (BFVD) is now published NAR! It contains protein structure predictions of major viral clades, enhanced by petabase-scale homology search and it's explorable on the web. 🌐 bfvd.foldseek.com 💾 bfvd.steineggerlab.workers.dev 📄 academic.oup.com/nar/advance-...

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Jon Lim, FRCP PhD @drjonlim.bsky.social · 23/11/2024

🎨 In case anyone need… The NIH BioArt Source is an awesome library of *free* professionally drawn illustrations for scientific presentations or figures. Downloadable in HD. Thank you NIH for this invaluable tool 🙏! Check it out 👇 bioart.niaid.nih.gov

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