GenePattern

The Genomics to Notebook (g2nb) environment is featured on the @GalaxyProject blog. Read about how to use Galaxy, IGV, and other bioinformatics tools from within a @ProjectJupyter notebook interface! galaxyproject.org/news/2025-04-1… #nciitcr #bioinformatics

Tangram is now available on GenePattern! 🎉 Map sc-RNA-seq data onto spatial gene expression data. GPU & CPU compatible for flexible workflows. 👉 CPU: t.ly/9G2lJ 👉GPU: t.ly/XO8qA 📷 GitHub: t.ly/07w-M #nciitcr @broadinstitute @NIH

Today's ( Monday September 16, 2024) GenePattern upgrade to the cloud server, cloud.genepattern.org/gp, is complete. Please let us know on the help forum, groups.google.com/u/1/g/genepatt…, if you experience any issues.

On Monday September 16, the main GenePattern public server, cloud.genepattern.org/gp, will be unavailable from 7:00 AM through 3:00 PM PST (UTC +8) to update the GenePattern software and database.

GenePattern needs your help! We are preparing a grant proposal for the sustainment of GenePattern server & GenePattern Notebooks. An email from you will help underscore their impact when the grant is reviewed. See our post at: bit.ly/gp-needs-your-…

GenePattern in @NatureComms! A transcriptome based molecular classification scheme for cholangiocarcinoma and subtype-derived prognostic biomarker. 2024. Nature Communications. doi.org/10.1038/s41467… #nciitcr #bioinformatics

GenePattern and @GSEA_MSigDB in @NatureComms! Tumour-retained activated CCR7+ dendritic cells are heterogeneous and regulate local anti-tumour cytolytic activity. 2024. Nature Communications. doi.org/10.1038/s41467… #nciitcr #bioinformatics

GenePattern and @GSEA_MSigDB in @NatureComms! The tumor microenvironment shows a hierarchy of cell-cell interactions dominated by fibroblasts. 2023. Nature Communications. doi.org/10.1038/s41467… #nciitcr #bioinformatics

The GenePattern server, cloud.genepattern.org, will be offline for maintenance on Tuesday November 7th, 2023 from 1-3pm PST (GMT-7).

g2nb: Genomics to Notebook! A new platform that combines the accessibility and research narrative capabilities of @ProjectJupyter with the genomics tools available in @galaxyproject, @igvteam, @cytoscape, and GenePattern. youtu.be/40YEVyJnGAc #nciitcr #bioinformatics

g2nb: Genomics to Notebook extends GenePattern Notebooks to add @galaxyproject, @igvteam, @cytoscape to @ProjectJupyter for easy access to 1000s of bioinformatics tools as notebook cells g2nb.org drive.google.com/file/d/1mIPo06… @g2nb #bioinformatics #openscience #nciitcr

The GenePattern server at cloud.genepattern.org will be unavailable between 1-3pm PST (UTC+8) on Monday August 28th, 2023 as it is upgraded to the latest version.

The GenePattern server at cloud.genepattern.org will be unavailable between 2-3pm PST (UTC+8) on Monday August 7th, 2023 as it is upgraded to the latest version.

Harmony, from the @RoychoudhuriLab, is now available on GenePattern! Harmony corrects batch effects in single-cell RNA seq datasets. Use it at rb.gy/o6a5n #nciitcr #Bioinformatics

GenePattern is glad to join @galaxyproject, @cytoscape, and @igvteam as tools in the JupyterLab-based g2nb environment. g2nb.org #nciitcr #bioinformatics

Genomics to Notebook (g2nb): extending the electronic notebook to address the challenges of bioinformatics analysis biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

Today's maintenance is complete and the GenePattern server at cloud.genepattern.org is once again available for use

On Monday, March 16th from 1:00 pm to 2:00 pm PST (UTC-8) the public GenePattern server at cloud.genepattern.org/gp will be unavailable for scheduled maintenance.

GenePattern, @galaxyproject, and @cytoscape in @IJMS_MDPI! Transcriptomic Analysis of Glycosylation and Neuroregulatory Pathways in Rodent Models in Response to Psychedelic Molecules. Oommen et al. 2023. IJMS. doi.org/10.3390/ijms24… #nciitcr #bioinformatics

The connection between GenePattern and Globus has been restored. All systems are operating properly once again.