Raul Rodriguez-Esteban

ISB 2025 Annual General Meeting Registration The International Society for Biocuration (ISB) will hold its Annual General Meeting (AGM) on Monday, October 27th, 2025 along with presentations by our two biocurator career award winners, Tiago Lubi...

Just 1 week to go to the Annual General Meeting.
There'll be a short update on ISB business, followed by talks from our Early and Advanced Career Award Winners, Tiago Lubiana and Kimberly Van Auken.
All are welcome. You do not need to be an ISB member to attend.
Sign up: forms.gle/wDX7MGHQwgoz...

Meta comment?

Very happy to see this research published after all the work from @nikitamakarov.bsky.social and Maria Bordukova! @fschmich.bsky.social and I are proud mentors.

DT-GPT: showing that LLMs can forecast patient trajectories (1/10)

Now in npj Digital Medicine www.nature.com/articles/s41...
Also in Doctor Penguin!

Big thanks to Maria Bordukova, @raulrod.bsky.social Papichaya Quengdaeng Daniel Garger @fschmich.bsky.social Michael Menden Helmholtz Munich Roche

Large language models forecast patient health trajectories enabling digital twins - npj Digital Medicine npj Digital Medicine - Large language models forecast patient health trajectories enabling digital twins

A new model, DT-GPT, uses LLMs to forecast patient health trajectories, enabling "digital twins." By processing raw EHR data, it outperformed state-of-the-art methods in cancer, ICU, and Alzheimer's cohorts and can even forecast untrained variables.
#MedSky #MedAI #MLSky

Ever-interesting Rod Brooks on how the challenges of touch are a barrier to achieving human-level dexterity in robots. Unlike language and sight, we can't get good training data for touch (nor, I might add, for olfaction, proprioception, pain, and interoception). rodneybrooks.com/why-todays-h...

ISB 2025 Annual General Meeting Registration The International Society for Biocuration (ISB) will hold its Annual General Meeting (AGM) on Monday, October 27th, 2025 along with presentations by our two biocurator career award winners, Tiago Lubi...

The ISB Annual General Meeting is coming up on October 27th. Register to hear what the society has been working on and to hear from our career award winners!
forms.gle/tC5TMZ2ZvFAD...

Long time no live-posting! Wecome to #bc2basel! @SIB https://bc2.ch/programme

The ISB Annual General Meeting is on October 27th at 4:00–6:00 pm CST / 3:00–5:00 pm GMT / 11:00 am–1:00 pm EDT / 8:00 am–10:00 am PDT We'll have an update on the society, followed by talks from our career award winners: Tiago Lubiana and Kimberly Van Auken

Register: forms.gle/sDVMzfrYBD7T...

Late to share here on bsky, but so happy with this award!

Also: ISB is a beautiful society; if you care about organizing bio data/knowledge, you might benefit from joining it!

What is happening to FlyBase and all the great people there is such a loss to the #Biocuration and #Bioinformatics community. Highly recommend anyone with openings to take the opportunity to employee these folks!

The 19th International Biocuration Conference is coming to 🌍 Cape Town, South Africa, April 20–24, 2026!
Hosted by:
@abinstitute.bsky.social
@biocurator.bsky.social
AfriGen-D & SADaCC

🔗 Info: bioinformaticsinstitute.africa/events/6/19t...
📬 Mailing list: bioinformaticsinstitute.africa/mailing-list

Voting for the 2025 #Biocuration Career Awards has ended. We would like to thank all the nominees, nominators, and voters. These awards celebrate all of the hard work biocurators do everyday to make data FAIR. The winners are:

The 19th International Biocuration Conference is coming to 🌍 Cape Town, South Africa -April 20–24, 2026
Hosted by @abinstitute.bsky.social with @biocurator.bsky.social , AfriGen-D & SADaCC
🔗 Info: bioinformaticsinstitute.africa/news-events/6
📬Mailing list: bioinformaticsinstitute.africa/mailing-list

I heard this morning that my informatics colleague Dr. Atul Butte passed after a battle with cancer. He was a giant in the field & inspired many of us over his distinguished career. He was a passionate champion of the power of big data & his impact on our field is immeasurable. RIP Atul & thanks.

Translation of this post?

We've extended the nomination deadline for #Biocuration career awards until Friday, June 13. Nomination forms www.biocuration.org/nominations-...
Please nominate your favorite biocurator!

A comparative analysis of large language models versus traditional information extraction methods for real-world evidence of patient symptomatology in acute and post-acute sequelae of SARS-CoV-2 Background Patient symptoms, crucial for disease progression and diagnosis, are often captured in unstructured clinical notes. Large language models (LLMs) offer potential advantages in extracting pat...

"This study compared fine-tuned LLMs (LLaMA2-13B and LLaMA3-8B) against BioMedICUS, a rule-based IE system, for extracting symptoms [...] BioMedICUS outperformed fine-tuned LLMs in most cases." journals.plos.org/plosone/arti...

Drosophila Genetic Database The Drosophila Genetic Database, FlyBase, is on the brink of collapse due to the sudden termination of the FlyBase NIH grant, which includes salaries for 5 literature curators based at the University ...

#drosophila @flybase.bsky.social request emergency funding:
"As it stands, by the end of July, 2025, there will be no future updates to FlyBase, and in the worst case scenario access to the website will also be lost" => please donate!

www.philanthropy.cam.ac.uk/give-to-camb...

Just a few days left to nominate a deserving curator for one of the Biocuration Career Awards (1/6)
#Biocuration

Still time to submit your nominations! #biocuration

Don’t miss the Basel Computational Biology Conference [BC]2 8–10 Sept., 2025 Basel, Switzerland
Keynotes: Serena Nik-Zainal (Univ. of Cambridge, UK), Peer Bork (EMBL Heidelberg, Germany) & Julia Merkenschlager (Harvard Medical School, USA)
Early bird reg. ends 30 June!
www.bc2.ch/registration...

Call for proposals to host the 2027 Biocuration conference is live! If you're in Asia/Oceania and interested in hosting please take a look. If you have questions please reach out to any member of the Executive Committee and we'll do our best to answer.
www.biocuration.org/call-for-pro...

Benchmarking large language models for biomedical natural language processing applications and recommendations - Nature Communications Baseline performance, benchmarks, and guidance for LLMs in biomedicine are limited. The authors assess four LLMs on 12 tasks, establish baselines, examine hallucinations, and provide recommendations f...

so the BERT/BART models are still better for text simplification, text summarization, document classification and entity recognition. But the GPT-type models are better at question answering
www.nature.com/articles/s41...

can't really just use an LM as a surrogate for the world or a person. its internal causal model is pretty bespoke. GPT-2 and Llama have very different causal models of the world.

18th Annual International Biocuration Conference Organized by Sofia Robb, Chris Seidel, and Sue Bello Hosted by the Stowers Institute for Medical Research

The 18th Annual International Biocuration Conference (stowers.org/events/biocu...) is just a few days away! 🎉 We’re excited to meet you at our upcoming:

-Workshop, 'AI and Biodata Resources: Implications for Sustainability and Best Practices in Biocuration' this weekend.

Biocuration Community Survey 2025 This survey aims to gather and analyze information about the field of biocuration. This survey is being conducted by the International Society for Biocuration (ISB) to identify potential gaps or ineq...

We have a survey up collecting information about the field of biocuration. This information will be incorporated into the biocuration careers workshop during the #Biocuration2025 conference.
forms.gle/QGfRoC3caFcU...

PUBMED is down. This is disaster !!
We do not have the system and organization to replace it. (EuroPMC is great but not a replacement)
It is crystal clear that we cannot depend on critical systems provided by a single provider.
European reaction has to include science and science infrastructures.

Biocuration Community Survey 2025 This survey aims to gather and analyze information about the field of biocuration. This survey is being conducted by the International Society for Biocuration (ISB) to identify potential gaps or ineq...

Prior to the #Biocuration Careers workshop at the #Biocurtation2025 conference, we are conducting a survey of biocurators and data stewards about their jobs. Please respond here: forms.gle/DJ7irabs27em...

A word cloud of keywords associated with abstracts for the Biocuration 2025 conference. The largest word is Curation and is shown vertically going down the screen. Other large words are Annotations, Data Standards, Databases, Ontologies, Large Language Models and Disease.

The registration deadline for #Biocuration2025 is fast approaching. Registration closes February 28th www.stowers.org/events/biocu...