Ben Busby

BioAI Hackathon at the University of Warsaw! - Centre of New Technologies Join us for the first international BioAI Hackathon at the University of Warsaw on May 12-15, 2025! The aim of the 4-day hackathon is to collaboratively address current challenges in biomedical resear...

cent.uw.edu.pl/bioai-hackat...

Please try to join us in person if you’re in Europe and remotely if not!

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

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

Hidden cell dark genome 2025 Hidden cell dark genome 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

Toward Disease Sub-typing with Ben Busby, DNAnexus We’re happy to welcome back Ben Busby, Principal Scientist at DNAnexus, to dive deeper into the evolving world of disease subtyping and multi-omic data sets.

@dcgenomics.bsky.social was on this week's @mendelspod.bsky.social! He discusses the genomic data ecosystem & the shift to #multiomics workflows incorporating #genomics, #proteomics, #imaging, and more. He also explores the impact of #AI in #bioinformatics. gw-resources.genomeweb.com/free/w_dnan1...

Innovations in Clinical Testing for Oncology & Rare Diseases Clinical testing for oncology and rare diseases faces unique challenges that demand innovative solutions. Patient recruitment and retention remain significant hurdles, with stringent eligibility crite...

We’ve gathered an expert panel to discuss clinical testing innovations & how #diagnostics orgs can bridge the gap between research, #drugdevelopment, healthcare providers & patients. 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

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

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

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

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!

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.

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.

“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

A Quantitative Proteome Map of the Human Body Proteomics analysis across human tissues from the GTeX resource reveals insight into tissue-specific pathways and phenotypes arising from genetic diseases.

A Quantitative Proteome Map of the Human Body: Cell www.cell.com/cell/fulltex...

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?

I can’t wait!

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

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)

TFBSFootprinter: a multiomics tool for prediction of transcription factor binding sites in vertebrate species https://www.biorxiv.org/content/10.1101/2025.01.09.632105v1

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...

🌱 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

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

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...

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

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

Director, Institute for Quantitative and Computational Biosciences University of California, Los Angeles is hiring. Apply now!

UCLA QCBIO is looking for its next director! Please consider applying! recruit.apo.ucla.edu/JPF10007

Catalyzing computational biology research at an academic institute through an interest network https://www.biorxiv.org/content/10.1101/2025.01.05.631403v1

Let There Be Drugs 2.0 A Year of Firsts, Breakthroughs & AI Awareness

I wrote a substack post on FDA approvals & trends in 2024. Key points:
- a total of 50 FDA-approved therapeutics
- Small molecules dominated (64%), biologics and hybrid modalities catching up
- Growing AI awareness at FDA and establishment of the AI Council
thealiquot.substack.com/p/let-there-...

AI Model Has Promise for Predicting Checkpoint Inhibitor Activity in NSCLC Score based on pathology images an independent predictor of PFS, OS

🧪 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

Intronic variant increases Parkinson disease risk by disrupting branchpoint sequence - Nature Structural & Molecular Biology A genetic variant specific to people of African ancestry increases the risk of neurodegenerative diseases, such as Parkinson disease (PD). This variant occurs in a noncoding region and interferes with...

As someone whose PhD mentor was an RNA structure guy; I love this so: www.nature.com/articles/s41...

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

ProteoPlotter: an executable proteomics visualization tool compatible with Perseus https://www.biorxiv.org/content/10.1101/2024.12.30.630796v1

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

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...

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!