David Steinberg
@david4096.bsky.social
I make stuff to help scientists focus on their research david4096.github.io
Want to make better use of ontologies? Check out on2vec created at DBCLS #biohackathon 2025...
It turns ontologies into embeddings you can actually use in ML models. Perfect for biomedical data, knowledge graphs, etc. osf.io/preprints/bi... github.com/david4096/on...
It turns ontologies into embeddings you can actually use in ML models. Perfect for biomedical data, knowledge graphs, etc. osf.io/preprints/bi... github.com/david4096/on...
OSF
osf.io
October 21, 2025 at 6:44 PM
Want to make better use of ontologies? Check out on2vec created at DBCLS #biohackathon 2025...
It turns ontologies into embeddings you can actually use in ML models. Perfect for biomedical data, knowledge graphs, etc. osf.io/preprints/bi... github.com/david4096/on...
It turns ontologies into embeddings you can actually use in ML models. Perfect for biomedical data, knowledge graphs, etc. osf.io/preprints/bi... github.com/david4096/on...
Hello from @ga4gh.org Plenary in Uppsala!
October 6, 2025 at 8:01 AM
Hello from @ga4gh.org Plenary in Uppsala!
Reposted by David Steinberg
Announcing GIF Project: Cloud-based BRCA Exchange variant analysis environment using GA4GH standards in Camber. The project aims to adapt and extend community-driven standards to support interoperable workflows, variant annotation, and metadata description. Learn more: www.ga4gh.org/what-we-do/g...
Cloud-Based BRCA Exchange Variant Analysis Environment Using GA4GH Standards in Camber
By integrating BRCA Exchange variant data with GA4GH standards, this GA4GH Implementation Forum (GIF) project creates open, platform-agnostic workflows and tools that can be used by anyone for scalabl...
www.ga4gh.org
July 22, 2025 at 1:46 PM
Announcing GIF Project: Cloud-based BRCA Exchange variant analysis environment using GA4GH standards in Camber. The project aims to adapt and extend community-driven standards to support interoperable workflows, variant annotation, and metadata description. Learn more: www.ga4gh.org/what-we-do/g...
Collected together @ga4gh.org Bluesky accounts here, lmk if you want to be added! go.bsky.app/8BDDMqM
April 3, 2025 at 8:20 PM
Collected together @ga4gh.org Bluesky accounts here, lmk if you want to be added! go.bsky.app/8BDDMqM
Calling all @ga4gh.org Connect 2025 attendees online and in-person, let's connect here on bluesky! #ga4ghconnect2025 #ga4gh #bioinformatics #genomics
April 1, 2025 at 1:59 PM
Calling all @ga4gh.org Connect 2025 attendees online and in-person, let's connect here on bluesky! #ga4ghconnect2025 #ga4gh #bioinformatics #genomics
Grace Hopper could really get people laughing about information sciences and the struggles of working under strict hierarchies www.youtube.com/watch?v=si9i...
Capt. Grace Hopper on Future Possibilities: Data, Hardware, Software, and People (Part One, 1982)
YouTube video by National Security Agency
www.youtube.com
March 26, 2025 at 9:04 PM
Grace Hopper could really get people laughing about information sciences and the struggles of working under strict hierarchies www.youtube.com/watch?v=si9i...
If you haven't caught up with the amazing new demos from @dynamicland.org now is your chance www.youtube.com/watch?v=Osn3...
Summary of "Improvising to cellular playgrounds in Realtalk", Aug 2023
YouTube video by Dynamicland
www.youtube.com
March 12, 2025 at 11:54 PM
If you haven't caught up with the amazing new demos from @dynamicland.org now is your chance www.youtube.com/watch?v=Osn3...
At the @mlcommons.org Croissant community meeting with, you guessed it
March 11, 2025 at 5:50 PM
At the @mlcommons.org Croissant community meeting with, you guessed it
Toshiyaki Katayama, original author of the wildly popular KEGG database rounding out the keynotes @swat4hcls.bsky.social by showing us the past, present, and future of linked data in the life sciences — lots of excitement for the possibilities of #graphgenome!!
February 26, 2025 at 4:35 PM
Toshiyaki Katayama, original author of the wildly popular KEGG database rounding out the keynotes @swat4hcls.bsky.social by showing us the past, present, and future of linked data in the life sciences — lots of excitement for the possibilities of #graphgenome!!
Nice to see this one making the rounds @dockstore.org @ucscgenomics.bsky.social
From NPG's Scientific Data | Applying the FAIR Principles to computational workflows |
#FAIRPrinciples #Workflows #FAIR #FAIRData #FairSoftware 🧬 🖥️ 🧪🔓
⬇️
www.nature.com/articles/s41...
#FAIRPrinciples #Workflows #FAIR #FAIRData #FairSoftware 🧬 🖥️ 🧪🔓
⬇️
www.nature.com/articles/s41...
Applying the FAIR Principles to computational workflows - Scientific Data
Recent trends within computational and data sciences show an increasing recognition and adoption of computational workflows as tools for productivity and reproducibility that also democratize access t...
www.nature.com
February 25, 2025 at 5:21 PM
Nice to see this one making the rounds @dockstore.org @ucscgenomics.bsky.social
February 25, 2025 at 5:09 PM
Embedding knowledge graphs in order to compare ontologies using learned features from Shervin Mehryar’s keynote
February 25, 2025 at 9:19 AM
Embedding knowledge graphs in order to compare ontologies using learned features from Shervin Mehryar’s keynote
One of the common themes of the conversations at #swat4hcls so far is that knowledge graphs are proving to be critical for reliability and interpretability of AI and LLMs in specific
February 25, 2025 at 8:59 AM
One of the common themes of the conversations at #swat4hcls so far is that knowledge graphs are proving to be critical for reliability and interpretability of AI and LLMs in specific
Excited to attend #SWAT4HCLS in Barcelona next week, representing @cambercloud.bsky.social ! 🎉
At the hackathon, we’ll explore #CroissantML for seamless dataset & model access via @hf.co and @kaggle.com 🤓
At the hackathon, we’ll explore #CroissantML for seamless dataset & model access via @hf.co and @kaggle.com 🤓
February 22, 2025 at 8:23 PM
Excited to attend #SWAT4HCLS in Barcelona next week, representing @cambercloud.bsky.social ! 🎉
At the hackathon, we’ll explore #CroissantML for seamless dataset & model access via @hf.co and @kaggle.com 🤓
At the hackathon, we’ll explore #CroissantML for seamless dataset & model access via @hf.co and @kaggle.com 🤓
Biology datasets tend to be messy, require domain knowledge to parse, and not immediately usable for training AI models. That’s part of why I became interested in @mlcommons.org CroissantML as a way to bring ML tools to biology data — we’re presenting a poster on this effort at #swat4hcls next week!
February 17, 2025 at 9:54 PM
Biology datasets tend to be messy, require domain knowledge to parse, and not immediately usable for training AI models. That’s part of why I became interested in @mlcommons.org CroissantML as a way to bring ML tools to biology data — we’re presenting a poster on this effort at #swat4hcls next week!
This is a great opportunity to contribute —
#BOSC2025 is now accepting abstract submissions for talks and posters about #OpenSource #bioinformatics or #OpenScience 🍐
#BOSC2025 will include a joint session with the Bio-Ontologies and Knowledge Representation COSI, @bokr.bsky.social
Submissions close April 17: www.open-bio.org/events/bosc-...
#BOSC2025 will include a joint session with the Bio-Ontologies and Knowledge Representation COSI, @bokr.bsky.social
Submissions close April 17: www.open-bio.org/events/bosc-...
OBF » Submit to BOSC 2025 » Submit to BOSC 2025
Bioinformatics Open Source Conference
www.open-bio.org
February 13, 2025 at 8:05 AM
This is a great opportunity to contribute —
@anthropic.com marked bioinformaticians as Office & Administrative for their job category 🧐 www.anthropic.com/news/the-ant...
February 13, 2025 at 4:00 AM
@anthropic.com marked bioinformaticians as Office & Administrative for their job category 🧐 www.anthropic.com/news/the-ant...
gestures in @worrydream.com
software engineers always say shit like "i hooked up my lambda s3 drupal instance to my kubernetes microservice load balancer" and all i can say to that shit is you have lost your way this is not what computers are for
February 10, 2025 at 9:46 PM
gestures in @worrydream.com
My feed is full of people who are struggling to understand how they are going to continue their research and my heart goes out to everyone. Doing basic research is already hard enough
February 1, 2025 at 7:28 PM
My feed is full of people who are struggling to understand how they are going to continue their research and my heart goes out to everyone. Doing basic research is already hard enough
Has anyone in my network tried @researchhubf.bsky.social ?
January 30, 2025 at 6:31 AM
Has anyone in my network tried @researchhubf.bsky.social ?
Happy Lunar New Year to all who celebrate 🎊
January 29, 2025 at 1:09 AM
Happy Lunar New Year to all who celebrate 🎊
Science has always been political?
January 26, 2025 at 12:58 AM
Science has always been political?
If you could have skipped one thing you had to do in your latest project, what would it have been?
January 24, 2025 at 3:08 AM
If you could have skipped one thing you had to do in your latest project, what would it have been?
Great resources for data sharing requirements for research 👇 the technical and administrative overhead for this needs to be addressed up front when designing research plans!
Public data sharing is becoming more commonly required from agencies that support our research. Yet, there are many decisions that need to be considered before you can share data collected from your research study. Here is a list of resources that can help you with this decision making process!
January 21, 2025 at 5:28 PM
Great resources for data sharing requirements for research 👇 the technical and administrative overhead for this needs to be addressed up front when designing research plans!