GenePattern

GenePattern is an open source platform for reproducible bioinformatics providing access to 250+ tools for the analysis of genomic data #progammingoptional

[GenePattern @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!

https://t.co/ZxcyiXc5DK

#nciitcr #bioinformatics

[GenePattern @GenePattern]

Tangram is now available on GenePattern! 🎉 Map sc-RNA-seq data onto spatial gene expression data. GPU & CPU compatible for flexible workflows.
👉 CPU: https://t.co/ug69uSGOLl
👉GPU: https://t.co/r38o884UpC
📷 GitHub: https://t.co/AEYq7UFsQs #nciitcr @broadinstitute @NIH

[GenePattern @GenePattern]

Today's ( Monday September 16, 2024) GenePattern upgrade to the cloud server, https://t.co/IGQRL4d6T1, is complete. Please let us know on the help forum, https://t.co/pkvktZRRVL, if you experience any issues.

[GenePattern @GenePattern]

On Monday September 16, the main GenePattern public server, https://t.co/IGQRL4d6T1, will be unavailable from 7:00 AM through 3:00 PM PST (UTC +8) to update the GenePattern software and database.

[GenePattern @GenePattern]

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: https://t.co/r7UI7z3eLr

[GenePattern @GenePattern]

GenePattern in @NatureComms! A transcriptome based molecular classification scheme for cholangiocarcinoma and subtype-derived prognostic biomarker. 2024. Nature Communications. https://t.co/JINDSzzWcj #nciitcr #bioinformatics

[GenePattern @GenePattern]

GenePattern and @GSEA_MSigDB in @NatureComms! Tumour-retained activated CCR7+ dendritic cells are heterogeneous and regulate local anti-tumour cytolytic activity. 2024. Nature Communications. https://t.co/sI8PhX1zza #nciitcr #bioinformatics

[GenePattern @GenePattern]

GenePattern and @GSEA_MSigDB in @NatureComms! The tumor microenvironment shows a hierarchy of cell-cell interactions dominated by fibroblasts. 2023. Nature Communications. https://t.co/aMSu4wKtUJ #nciitcr #bioinformatics

[GenePattern @GenePattern]

The GenePattern server, https://t.co/Nw4rA7zL1p, will be offline for maintenance on Tuesday November 7th, 2023 from 1-3pm PST (GMT-7).

[GenePattern @GenePattern]

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. https://t.co/8zZNRkhPC9 #nciitcr #bioinformatics

[GenePattern @GenePattern]

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 https://t.co/EzoDi6A5ND https://t.co/LI3zijK8PA @g2nb #bioinformatics #openscience #nciitcr

[GenePattern @GenePattern]

The GenePattern server at https://t.co/Nw4rA7zL1p will be unavailable between 1-3pm PST (UTC+8) on Monday August 28th, 2023 as it is upgraded to the latest version.

[GenePattern @GenePattern]

The GenePattern server at https://t.co/Nw4rA7zL1p will be unavailable between 2-3pm PST (UTC+8) on Monday August 7th, 2023 as it is upgraded to the latest version.

[GenePattern @GenePattern]

Harmony, from the @RoychoudhuriLab, is now available on GenePattern! Harmony corrects batch effects in single-cell RNA seq datasets. Use it at https://t.co/2tOCYamUjD #nciitcr #Bioinformatics

[GenePattern @GenePattern]

GenePattern is glad to join @galaxyproject, @cytoscape, and @igvteam as tools in the JupyterLab-based g2nb environment. https://t.co/SvrRQJkz1E #nciitcr #bioinformatics

[bioRxiv Bioinfo @biorxiv_bioinfo]

Genomics to Notebook (g2nb): extending the electronic notebook to address the challenges of bioinformatics analysis https://t.co/VwJoZx1R8E #biorxiv_bioinfo

[bioRxiv Bioinfo @biorxiv_bioinfo]

Genomics to Notebook (g2nb): extending the electronic notebook to address the challenges of bioinformatics analysis https://t.co/VwJoZx1R8E #biorxiv_bioinfo

[GenePattern @GenePattern]

Today's maintenance is complete and the GenePattern server at https://t.co/jUEyU0Y0Fq is once again available for use

[GenePattern @GenePattern]

On Monday, March 16th from 1:00 pm to 2:00 pm PST (UTC-8) the public GenePattern server at https://t.co/IGQRL4d6T1 will be unavailable for scheduled maintenance.

[GenePattern @GenePattern]

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. https://t.co/nfIRWBjSPk #nciitcr #bioinformatics

[GenePattern @GenePattern]

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