Mastodawn

Come work with me! RENCI at the Univ of North Carolina (UNC) Chapel Hill is hiring a Research Software Developer to work on scientific software development, CI pipelines, deployment workflows and secure software development: https://unc.peopleadmin.com/postings/312951 #rse #job #fediHire

Research Software Developer

The Research Software Developer will contribute to the design, development, and operation of cloud-native computing environments that support research and data-driven projects at the Renaissance Computing Institute (RENCI). This role focuses on building foundational software components and workflows while developing skills in modern research software engineering practices.Responsibilities include:1. Implementing data structures, algorithms, and research workflows2. Assisting with DevOps and automation practices, including continuous integration pipelines and deployment workflows3. Supporting improvements to security, reliability, and observability, such as automated testing, vulnerability scanning, and performance monitoringThe Research Software Developer will work closely with senior engineers, RENCI management, and research partners to understand requirements, implement features, demonstrate functionality, and incorporate user feedback. This position provides strong opportunities for mentorship, skill development, and professional growth within a collaborative research environment.

Jim Balhoff Feb 3

Gene Ontology Feb 2

🚀 The January Gene Ontology release is here! Now covering 1.7M bioentities with 9.4M annotations across 5,500+ taxa✨

🔗 Get the official GO data:
📊 current.geneontology.org
📁 https://doi.org/10.5281/zenodo.18422732

Details: https://community.alliancegenome.org/t/8613 via the Alliance of Gennome Resources community forums

#Bioinformatics #openscience

Gene Ontology Data Archive

Archival bundle of GO data release.

Zenodo

Jim Balhoff Jan 4

Norbert Heger Dec 25

I guess someone at Apple must enjoy looking at toolbars like this from time to time. I don’t.

Jim Balhoff Jan 3

Scott Santens Jan 3

Amazing record for the FIFA

Jim Balhoff Dec 20

Gene Ontology Dec 19

As a final nod to 2025, the Gene Ontology announces our latest paper in NARl! Updates include expanded ontology & annotations in metabolism, multi-org interactions, chromatin remodeling & more.

Also featuring our Functionome v2 and 1500+ GO-CAM pathway models! 🧬🧪

https://doi.org/10.1093/nar/gkaf1292

Jim Balhoff Nov 22

Flipboard News Desk Nov 21

The U.S. immigration authorities' "Charlotte's Web" operation rolled into Charlotte, N.C., last week, arresting more than 250 people. The city resisted. @TheBulwark reports on some of the ordinary people who took a stand. “It is very evil and it’s hard to watch — to wrap your mind around the extent of it,” said Rev. Sadie Lansdale, a Unitarian minister. “But if you can find where to look, it’s not hard to be inspired by all the people standing up to fight it.”

https://flip.it/eDR6Yz

#USPolitics #TrumpAdministration #ICE #Immigration #USNews

A Baker, a Pastor, and Charlotte’s Stand Against ICE

How everyday people are reminding the nation what it means to be American.

The Bulwark

Jim Balhoff Oct 17

TGDK Oct 16

We are very pleased to announce that Transactions on Graph Data and Knowledge articles are now also available in HTML, under Diamond Open Access, as part of a pilot initiative by Dagstuhl Publishing to improve accessibility for the research results published!

See the following:

https://drops.dagstuhl.de/search?term=TGDK&type=Document/HTML

DROPS

Jim Balhoff Oct 5

Egon Willigh☮gen 🟥Oct 5

hi, I can use some help. I have a Jekyll setup for static site generation on GitHub Pages (hopefully Codeberg soon too). Now, if I have a /_posts/ I have a post.html to create a static page.

But if I want more than one page for each /_posts/ items? a $foo.html and a $foo.json (or even more than too).

How would I do that?

Jim Balhoff Oct 1

Wikidata Oct 1

The Wikidata Embedding Project is now publicly available!

This new vector database makes the structured knowledge from Wikidata directly accessible for building generative AI applications.
For the first time, AI developers can integrate the open, multilingual, and verifiable data in Wikidata into large language models (LLMs).

Read the announcement here: https://www.wikidata.org/wiki/Wikidata:Embedding_Project/October_1_2025_Release
The database is publicly and freely accessible at: https://wd-vectordb.toolforge.org

Jim Balhoff Sep 25

Charles Tapley Hoyt Sep 25

do you think these computer scientists will take my feedback and add a citation to PDB to their fancy sounding protein ML paper?

https://github.com/apple/ml-simplefold/issues/4

#biocuration #ml #ai #alphafold #apple

yes

57.1%

no

42.9%

Poll ended at Sep 28 at 3:31pm.

Please cite the data you used · Issue #4 · apple/ml-simplefold

I'm surprised you have published this work and mention Protein Data Bank accession numbers, but make no mention of the Protein Data Bank (PDB) as the source of the data, nor citation to it. For con...

GitHub