David L Gibbs @gibbsdavidl

Research Scientist Seattle, WA Joined March 2011

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David L Gibbs @gibbsdavidl

2 years ago

Yay! New paper published! academic.oup.com/bioinformatics… Define groups and smooth your single cell data for improved gene set scoring. Works with AnnData and gmt files (omnipath is also an option). Try it out with the available Colab notebooks in our repo. Thanks!

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antisense. @razoralign

3 years ago

GSSNNG: Gene Set Scoring on the Nearest Neighbor Graph (gssnng) for Single Cell RNA-seq (scRNA-seq) biorxiv.org/content/10.110…

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bioRxiv Bioinfo @biorxiv_bioinfo

3 years ago

Gene Set Scoring on the Nearest Neighbor Graph (gssnng) for Single Cell RNA-seq (scRNA-seq) biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

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CRI iAtlas @iatlas_cri

3 years ago

The IO Targets module at cri-iatlas.org allows you to explore the expression (in tumors) of the extended list of targets of IO therapy compiled by the @CancerResearch Clinical Accelerator team. go.nature.com/2RD8KNR #immunoOncology

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CRI iAtlas @iatlas_cri

4 years ago

The CRI iAtlas notebooks allow you to reproduce visualizations available at our portal, and can also be used to add your own data in the analysis.📈 github.com/CRI-iAtlas/iat… #immunology #immunogenomics

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CRI iAtlas @iatlas_cri

4 years ago

Check out our collection of R notebooks at github.com/CRI-iAtlas/iat…. Each notebook focuses on a specific analysis and enables the local integration of your data with what's already in iAtlas. @CancerResearch @isbsci @Sagebio #immunoOncology

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CRI iAtlas @iatlas_cri

5 years ago

Explore in cri-iatlas.org the germline genetic contribution to the immune landscape of cancer with results of heritability analysis, GWAS, and rare variant analysis across 30 cancer types characterized by the TCGA (1/2) #immunoOncology @isbsci @Sagebio @CancerResearch

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Vésteinn Þórsson @VesteinnThors

4 years ago

Exciting to see a new major release available of CRI iAtlas! Great to be able to explore molecular response to checkpoint inhibitors in 12 data sets. @isbsci @Sagebio @bgvincentlab

CRI iAtlas @iatlas_cri

4 years ago

Exciting to see a new major release available of CRI iAtlas! Great to be able to explore molecular response to checkpoint inhibitors in 12 data sets. @isbsci @Sagebio @bgvincentlab

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CRI iAtlas @iatlas_cri

4 years ago

We 🤩our new landing page 🔗cri-iatlas.org! The amazing @allisonx worked with us to revamp our homepage. The hero banner is her and @jamesaeddy’s artwork from the Immune Landscape of Cancer paper, which was the original inspiration for CRI iAtlas 💡

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ISB-CGC @isb_cgc

5 years ago

ISB-CGC worked with Dr. Torcivia on this project! We are eager to work with others on #CancerResearch projects. Please contact us by going to isb-cgc.org #BigQuery #GoogleCloud

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ISB-CGC @isb_cgc

5 years ago

The BEATAML1.0 GDC program is now available to explore in the ISB-CGC Data Explorer! You can now create and compare patient cohorts with the #BEATAML Data. Create a patient cohort at bit.ly/isbcgccohort and click the header 'BEATAML1.0 DATA' to see the available data.

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ISB-CGC @isb_cgc

5 years ago

ISB-CGC now hosts data in #BigQuery from the Proteomic Data Commons! Check out the new #proteome quant data matrix tables using the BigQuery Table Seach tool at bit.ly/BQTableSearch and filter Source by PDC. #NCIProteomics #CancerResearch #proteomics #NCIPDC

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ISB-CGC @isb_cgc

4 years ago

Case data from Proteomic Data Commons release 1.11 has been added to #BigQuery! Discover the new data using our BigQuery Table Search tool at bit.ly/BQTableSearch and filter Source by PDC. #proteome #NCIProteomics #CancerResearch #proteomics

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ISB-CGC @isb_cgc

4 years ago

The quarterly release of the Mitelman Database is out! The database now has 71,298 cases and 32,677 unique gene fusions! Check out the new update at bit.ly/mitelmandb #CancerResearch #genefusion #cytogenetic

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ISB-CGC @isb_cgc

5 years ago

Our Pipelines and APIs page has a collection of tutorials and documentation using ISB-CGC APIs, #GoogleCloud Compute Engine, and workflow languages such as #OpenWDL, #CommonWL, #nextflow, and #Snakemake to help you get started today at bit.ly/314sIGT

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ISB-CGC @isb_cgc

5 years ago

Have you explored our Cancer Data File Browser yet? It has a wide selection of cancer-related data files in #GoogleCloud Storage; including raw sequencing, CNV, and pathology & radiology images for #NCIGDC programs such as #TCGA, TARGET, & #BEATAML bit.ly/CancerDataFile…

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CRI iAtlas @iatlas_cri

5 years ago

Our most recent publication for the CRI iAtlas is now available on PubMed! CRI iAtlas: an interactive portal for immuno-oncology research pubmed.ncbi.nlm.nih.gov/33214875/ #R #RShiny #cancergenomics #immunology #systemsbiology 1/3

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ISB-CGC @isb_cgc

5 years ago

Are you interested in exploring the data available from ISB-CGC in #BigQuery? Use the BigQuery Table Search to find data from the Genomics Data Commons, Proteomics Data Commons, & more! Then jump directly to the data for analysis via #SQL. bit.ly/BQTableSearch #NCIGDC #NCIPDC

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CRI iAtlas @iatlas_cri

5 years ago

Check out cri-iatlas.org for our new modules with genomics data and interactive visualizations for 6 studies on the molecular response to #CTLA4 and #PD1/#PDL1 checkpoint inhibitors! #immunoOncology #cancerGenomics #immunology #systemsBiology 1/2