I'm hiring for a position in the software development team at the Ideker Lab, UC San Diego. The position is closely integrated with the research in the lab and also the Cytoscape and The NDEx Project projects. employment.ucsd.edu/research-softw…

Can't recommend this free 2-day #GeneOntology workshop enough!! If you can get to Rome the week after #biocuration2023, sign up now. Space is limited and yes the instructors are absolutely fantastic! Functional Gene Annotation MINT database

We have released version 0.3.0 of the #OntologyAccessKit #oaklib github.com/INCATools/onto…. Includes preliminary compatibility with cytoscape CX format and The NDEx Project, upgrade to the latest Bioregistry, and more support for working with the OBO Foundry #RelationOntology!

Ever seen ads for #taltz on TV and wondered what its MOA is in resolving psoriasis? Wonder no more - collaborating with Eli Lilly and Co. and The NDEx Project we show how Taltz blocks an IL17A-MuvB pathway to inhibit keratinocyte proliferation in clinical #psoriasis bit.ly/3JVUKcU

The deadline was extended - so students, don’t wait! The dkNET Summer of Data Student Program applications are due May 8, 2023! (dknet.org/about/Summer-P…) #FAIRdata #OpenScience #reproducibility #rigor

Top 50 most popular tools for pathway analysis. 1. Overrepresentation analysis (ORA) using a gene list 2. Functional class scoring (FCS) using expression data or some metrics. Based on a survey by @mdziemann's group journals.plos.org/ploscompbiol/a…

#DrugstOne: Turn your #Bioinformatics tool into a powerful, interactive #DrugRrepurposing 💊 webtool in <15mins with 3 lines of code. Check out drugst.one/call/ and join our initiative and publication (arxiv.org/abs/2305.15453). Jan Baumbach Michael Hartung Andreas Maier

Super excited to share with you the results of the CPTAC PanCancer Driver project, today officially out at @cellcellpress! sciencedirect.com/science/articl… Here’s a short tweetorial with the main findings where our lab mostly contributed

Curious about the current status of The NDEx Project ? Wondering how to use our infrastructure or collaborate with us? Find out in our latest video presentation crafted for #ismbeccb2023 ! youtu.be/uyb1kITH0Ns Cytoscape CCBB Cancer Cell Map #NCIITCR

Improved the The NDEx Project linking. Now linked via the @HGNC gene symbol, instead of the name. The range of #protein path visualizations presented is truly impressive. Link: conze.pt/explore/Calume… Explore all the human protein encoding genes: tinyurl.com/52fzfwx3

Our preprint is out! Learn how #LLMs can help you discover gene set function: doi.org/10.48550/arXiv… #nciitcr #networkbiology Cytoscape Cancer Cell Map @NCIsysbio UC San Diego From the Labs at Baylor College of Medicine

Our review+perspective paper on "Current and future directions in network biology" is online (arxiv.org/abs/2309.08478). This has been a Herculean effort by many co-authors, thank you all! Special thanks to Marinka Zitnik, Michelle M. Li (李敏蕊), Aydin Wells, and all section coordinators.

Interested in programmatic access to the UniProt database using Python - protein entry searches, data filtering, batch downloads & further processing of downloaded target data? Sign up for our next free webinar ebi.ac.uk/training/event… 16 Nov 2023, 15:30-16:30 (UK) EMBL-EBI Training

In a world first, the UK medicines regulator has approved a therapy that uses CRISPR gene editing as a treatment for diseases go.nature.com/3QDtwuV

**We are moving platforms** Bioconductor will cease posting on Twitter/X as of December 17, 2023. Instead we will be continuing to post on other social media platforms that better reflect our community’s code of conduct. Read more in our blog post: buff.ly/3RddEAV

Looking for a new way to measure impact metrics for your database? Introducing MBDBMetrics; an online tool designed to measure the impact of any biological data resource, freely accessible via Google Colab and GitHub. Find out more and try MBDBMetrics👇 academic.oup.com/bioinformatics…

Now online in Cancer Discovery: Cancer Mutations Converge on a Collection of Protein Assemblies to Predict Resistance to Replication Stress - by Xiaoyu Zhao @aksinghal90 Trey Ideker and colleagues doi.org/10.1158/2159-8… UC San Diego UC San Diego Health Moores Cancer Center #MachineLearning

NDEx v2.5.8 is out. Still working with the Gene Ontology @[email protected] team to include their GO-CAMs in IQuery... And the Cytoscape Web beta is coming soon! Stay tuned for the official announcement. #networkbiology #nciitcr Cancer Cell Map CancerSystemsBiology CCBB

We’re excited to be officially included in the #NIAID Data Ecosystem Discovery Portal, a hub for accessing #FAIRData from over 50 sources related to infectious and immune-mediated diseases. data.niaid.nih.gov

We did it! Cytoscape Web v1.0 is live! Try it here: web.cytoscape.org Publication: doi.org/10.1093/nar/gk… Manual: web-manual.cytoscape.org #BiomedicalResearch #SystemsBiology