@alliancegenome
The Alliance of Genome Resources supports biological science via data integration, standardization of data models and interfaces, and unified outreach. Find us at https://www.alliancegenome.org.
New paper from the Rat Genome Database!
Mapping of EFO terms from the GWAS catalog data to multiple ontologies at the Rat Genome Database url: academic.oup.com/database/art...
@ratgenome.bsky.social
We’re running a survey to learn about your experience with AlphaFold DB search results and filters.
Take 5-minutes to share your experience with AlphaFold DB search and have a say in upcoming improvements.
Fill in the survey forms.gle/K7RotPrD9ZPZ...
#AlphaFold #Bioinformatics #StructuralBiology
Registration is OPEN for the 2026 Santa Cruz Meeting on Developmental Biology!!! Please spread the word!
@mads100tist.bsky.social @socdevbio.bsky.social @bsdb.bsky.social @xenbase.bsky.social @isdb.bsky.social @devbiol.bsky.social @the-node.bsky.social
scdb2026.sites.ucsc.edu
European Amphibian Conference 2026, July 3-5, 2026, Prague, Czech Republic www.xenbase.org/xenbase/doNe... #science #devbio #xenopus #frogs
🎉Registration is OPEN! 🎉
Abstract submissions for oral & poster talks are live for the 4th Canadian Zebrafish Research Conference! 🐟
✈️ Travel awards will be selected from submitted abstracts, don’t miss your chance!
👉 event.fourwaves.com/4czrc/pages
@izfs.bsky.social @zebrafishrock.bsky.social
YRF1-1/YDR545W against S288C ORFs- try it now at https://www.alliancegenome.org/blast/SGD/R64-5-1m https://doi.org/10.1093/molbev/msz185
🧬 #SGD evolution continues: Our #BLAST service has migrated to the @alliancegenome.bsky.social website, maintaining the functionality & comprehensive SGD datasets #Yeast researchers depend on while adding cross-species exploration & faster search results
🧪 #YeastResearch
🔗 bit.ly/newBLAST
We're excited to announce we're starting a podcast "Curate This!" where we interview (bio)curators and have them show us how they work (live!)
In the first episode, we talked with @modcur.bsky.social about curating mouse alleles in @mousegenome.bsky.social
📺️ www.youtube.com/watch?v=rNwv...
📢 🧬 NEW GENOME ALERT
In #G3journal, Jaime Chaves and colleagues present genome assemblies of two rare bird species endemic to the Galápagos Islands by leveraging the @nanoporetech.com long-sequencing reads to generate real-time genetic data on site. (1/3) 🧵
Submit an abstract to #Yeast26 & enjoy invaluable benefits: buff.ly/BSiySYR
🔑 Get visibility for your research
💡Receive feedback from leaders in the field
🚀Elevate your CV
⭐Grow your presentation & communication skills
🤝Meet potential employers, mentors, & collaborators
🗨️: @schacherer.bsky.social
⏰1 week left to submit an abstract to #PEQG26!
Presenting your science at the meeting is a great intro to the community—large enough to capture the breadth of the field but small enough to be focused with just 1 session happening at a time.
Learn more & submit your work by Feb 5: buff.ly/NUGImZC
🚀January #GeneOntology release is here! Now covering 1.7M bioentities with 9.4M annotations across 5,500+ taxa✨
🔗 Get the data:
📊 current.geneontology.org
📁 doi.org/10.5281/zeno...
Details: community.alliancegenome.org/t/8613 via @alliancegenome.bsky.social
#Bioinformatics #OpenScience
Join SGD at #Yeast26 for cutting-edge #yeast research, networking opportunities, engaging talks, poster sessions, and workshops, for everyone from early career scientists to experienced researchers! Abstract submission by Mar5, early registration ends Apr16. See you there! @genetics-gsa.bsky.social
ICYMI, this month's Alliance webinar, "MCP-What is it and what can it do for you?", presented by Lincoln Stein, is now on the Alliance YouTube channel.
www.youtube.com/watch?v=DELY...
Want to know about future or past webinars? Check the Alliance Event Calendar www.alliancegenome.org/event-calendar
Join us at #DrosoSpain2026 for some great #Drosophila science! @flybase.bsky.social @fly-jedi.bsky.social @bdsc.bsky.social @dgrc.bsky.social
Please register by 11pm ET TONIGHT (1/14) to get the zoom link to hear Lincoln Stein give an introduction to model context protocols for AI agents TOMORROW (1/15 noon ET) tinyurl.com/4f9ycybt. A schedule of upcoming webinars & recordings of past webinars is here www.alliancegenome.org/event-calendar
Service notice - we are working on server issues affecting the Ensembl mirror sites. Workaround - ensembl.org?redirect=no or an archive may2025.archive.ensembl.org/. You can try the new Ensembl site at beta.ensembl.org and let us know about the features you would like to see!
This month's Alliance webinar "MCP-What is it and what can it do for you?", presented by Lincoln Stein, will be Thurs. Jan. 15 at noon ET. To get the Zoom link, please register tinyurl.com/4f9ycybt by Thurs. Jan 14 (before 11:00pm ET).
Join us to learn about model context protocols for AI agents.
Proud of latest publication on #Drosophila #enzymes at doi.org/10.1093/g3jo..., representing several years of diligent work enhancing fly enzyme annotations and display at @flybase.bsky.social and significant improvements of the #GeneOntology.
✨ Did you know JAX offers free, self‑paced online MicroLessons (15 minutes) and Mini‑Courses (1–2 hours)?
👉 MicroLessons: https://education.learning.jax.org/page/online-microlessons
👉 Mini‑Courses: https://education.learning.jax.org/page/online-minicourses
#Yeast #Genetics Meeting abstract submission and registration sites are open! Abstracts due March 5!
community.alliancegenome.org/t/yeast-gene...
Figure depicting the four classes of important questions that frequently arise when using research organisms to study biomedical questions and translating findings to humans. a, How to predict disease–gene or function–gene relationships across species? Diagram depicts genes in each species associating with specific functions, diseases and phenotypes. b, How to identify functionally equivalent molecular components across species? Diagram depicts finding the most equivalent gene, pathway or expression module or phenotype between species. c, How to infer perturbed molecular profiles across species? Diagram depicts gene expression in each species as a result of taking a particular perturbation like a drug. d, How to map equivalent cell types and cell states across species? Diagram depicts alignment of cell types across species. This Perspective comprehensively lays out the landscape of recent and state-of-the-art data-driven strategies, including those that leverage artificial intelligence and machine learning (ML), for answering these questions.
Our Perspective article on Computational Strategies for Cross-Species Knowledge Transfer is now published in @natmethods.nature.com!
This was a collab b/w @krishnanlab.bsky.social & @fishevodevogeno.bsky.social, led by the amazing Hao Yuan @yhbioinfo.bsky.social. 🧵
www.nature.com/articles/s41...
🎉 5,000+ genome assemblies sequenced!
EBP affiliates are building momentum, and we’re already looking ahead to the next genome sequencing milestone on the road to 2026.
Congratulations to everyone who worked together to make this happen. Happy holidays and a happy New Year! ✨🧬
Screenshot of the Alliance BLAST server page. The text reads: Welcome to the BLAST Service for the Alliance of Genome Resources! This BLAST service allows researchers to search genomic sequences using the Basic Local Alignment Search Tool (BLAST). By entering a sequence or query, users can find regions of similarity to various genomes within the Alliance. This service supports separate environments for each of the Model Organism Databases (MODs) as well as a unified environment for the Alliance. Results provide detailed alignments and annotations to aid in your research. Explore the various BLAST environments through the links below to find the one that best suits your research needs: Fly BLAST Worm BLAST Yeast BLAST Fungal BLAST Rat BLAST
Improved for Alliance v.8.3: The Alliance BLAST Service page www.alliancegenome.org/blastservice has been updated to include fly, worm, yeast, fungal, and rat BLAST services.
Downloaded file of the expression data for the mouse gene Pten, limited to expression in the 'alimentary part of gastrointestinal system', using default sorting. The sorting displayed in the table on the Pten gene report is preserved in the downloaded file (alphabetical by Location, temporal by Stage within Location, alphabetical by Assay within Stage).
Downloaded file of the expression data for the mouse gene Pten, limited to expression in the 'alimentary part of gastrointestinal system', sorted by Assay. The sorting displayed in the table on the Pten gene report is preserved in the downloaded file (alphabetical by Assay, then alphabetical by Location within Assay, then temporal by Stage within Location).
This sorting is preserved when one downloads the table data.
The Expression section of the gene page for the mouse gene Pten, displaying expression limited to 'alimentary part of gastrointestinal system'. The default display is shown, where the table is sorted by Location (alphabetical order), then Stage (temporal order within Location), then Assay (alphabetical order within sorted Stage). Sorting choice can be changed using the drop-down menu at the upper right of the table.
The Expression section of the gene page for the mouse gene Pten. The table is now sorted by Assay. The Location column now sorts alphabetically within Assay, then Stage column sorts by temporal order within Location.
Improved in Alliance v. 8.3.0:
The gene page Expression ribbon and table have been updated to improve sorting features.
For example, the table is sorted by Location by default. If one instead sorts Assay, the other columns will also sort (by Location then Stage).
The Transgenic Alleles section of the gene report for the C. elegans gene daf-16. Construct components such as reporters and protein tags are now displayed in the Expressed Components column for C. elegans genes; such components have been highlighted here with purple boxes.
The Allele/Variant report for the C. elegans transgenic allele armEx257. The protein tag tagRFP is displayed in the Expressed Components entry under the Transgenic Constructs section, and is highlighted with a purple box.
Other components of constructs, like fluorescent reporters & protein tags, have been added to the data for C. elegans transgenes (some other organisms had them already). They're displayed in the Expressed Components column, as well as in the Transgenic Constructs section of Alleles/Variants reports.
Although the SGD website will be available over the next few weeks, SGD staff will be on winter break until Jan 5, 2026.
SGD wishes all of you, your colleagues, and your families a safe and restful holiday season. May your yeast grow robustly and your experiments be reproducible! 🧬🍻☃️
❄️ Gene Ontology Winter Break ❄️
Our resources will remain fully accessible through the holiday season: release.geneontology.org. Support requests will be addressed after we return on January 5th.
Wishing our wonderful community a restful season and a well-annotated 2026! 🧬✨
As a final nod to 2025, #GeneOntology announces our latest paper in @narjournal.bsky.social! Updates include expanded #Ontology & annotations in #Metabolism, multi-org interactions, #chromatin remodeling, & more.
Also ft. #Functionome v2 and 1500+ GO-CAM pathway models! 🧬🧪
doi.org/10.1093/nar/...
The Alleles/Variants report for the C. elegans allele eluls300. In the Transgenic Construct section, GFP is circled in purple; GFP is being driven by the regulatory regions of the C. elegans gene daf-16.
The components being driven by a gene's regulatory region are displayed in the Expressed Components column, as well as in the Transgenic Constructs section of Alleles/Variants reports.