SPECC1, RAF1, RREB1, BCL11B novel breast cancer driver genes
#mRNA expression in #TCGA
R2 open online data science platform for biomedical researchers
r2platform.com
#breastcancer #nature
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#TCGA
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Posts tagged #TCGA
Two FRA-RIG-LUNG survival models for TCGA LUAD: one outcome-aware, one “honest” (no future leakage). Models, reports and sklearn code 📁 zenodo.org/records/1781...
#lungcancer #LUAD #TCGA #AIforHealth #bioinformatics #opensource #OpenData
#Alsky #MachineLearning #NeurosymbolicAI#BigData #Tech
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The R2 platform : Democratizing bioinformatics through an easily accessible public online software platform for non-experts in the field of Genomics
r2platform.com
#genomics #datascience #expertise #fair #public #science #bioinformatics #nocode #tcga #gtex #depmap
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The R2 platform : Democratizing bioinformatics through an easily accessible public online software platform for non-experts in the field of Genomics
r2.amc.nl
#genomics #datascience #expertise #fair #public #science #bioinformatics #nocode #tcga #gtex #depmap
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KaplanScanner in #TCGA LUAD #lung cancer identifies genes whose expression can seggregate patient survival.
Like #FAM83A, but also other members of this protein family
1 Minute work in the R2 open online data #science platform for biomedical researchers.
Speed up your research too at r2.amc.nl
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#PRAME expression in #TCGA
R2: open online genomics analysis and visualzation platform for biomedical researchers
r2.amc.nl
Tell your stories in data
2750+ public data sets e.g. TCGA, GTeX, DepMap
Cited > 3000 times in Pubmed
#science
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Comprehensive Computational Assessment of SNAI1 and SNAI2 in Gastric Cancer: Linking EMT, Tumor Microenvironment, and Survival Outcomes
📊 Big data meets clinical insight.
#GastricCancer #EMT #Bioinformatics #Oncology #CancerResearch #TCGA
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Jordan Lee describes the Tumor Molecular Pathology (TMP) machine learning toolkit that can classify new samples into previously defined #TCGA molecular subtypes
@ohsunews.bsky.social
👀 ⬇️
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Intelligent use of the #TCGA database!
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Interested in #TCGA tumor profiles? Narrow the scope within R2 with a dataset scope and get started quickly.
bit.ly/4i5dYNi
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The final model was cross-validated, achieving a
Specificity of 96.90%, discovering as well new alterations beyond the original scope of analysis within #TCGA. (5/n)
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We developed a naive Bayes-based classifier trained on #TCGA data to identify constitutive activation of the KEAP1-NRF2 pathway.
It focuses on mutations impacting pathway activity and leverages splicing junction signatures as biomarkers. (3/n)
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Predicted CERES #DepMap gene dependency scores on #TCGA samples, to assess gene dependency in nearly 10,000 human tumor samples
These predicted scores can readily be explored in the open access online R2 data science platform r2.amc.nl
Designed to be used by biomedical researchers ( #nocode )
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Our Community Notebook Repository is a collection of tutorial and statistical analysis notebooks. These range from getting started to comparing the Mitelman DB to CytoConverter and #TCGA data. bit.ly/CommunityNot... #rstats #Python #JupyterNotebook
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Are you interested in quickly creating patient cohorts for #NCIGDC and #NCIPDC programs, such as #TCGA and #BEATAML? Try out the ISB-CGC Cohort Builder & Data Explorer! Create and compare cohorts with image viewers tools and file lists at bit.ly/isbcgccohort
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Masked Somatic Mutation data from the GDC r39 are now available in #BigQuery! Check out the new table with our BigQuery Table Search at bit.ly/BQTableSearch_Processed_omics by filtering data type by SOMATIC MUTATION.
#CancerResearch #TCGA
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ISB-CGC was highlighted in a Google blog on Medium! It covers running statistics for #CancerResearch inside #BigQuery with User-Defined Functions and our #TCGA BigQuery tables. Find out more at medium.com/@jrossthomso...
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We host clinical, case, file, and processed -omics cancer data such as Protein Expression and RNA Expression data from multiple GDC and PDC programs including data from #TCGA, TARGET, #CPTAC, and CBTN. Learn more at bit.ly/ISB-CGC_Data
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You can explore in http://cri-iatlas.org the results of the analysis of #TCGA digital pathology images for tumor infiltrating lymphocytes (TILs) (described at www.cell.com/cell-reports/fulltext/S2... select a TIL map characteristic to see its distribution...
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Explore driver genes and oncogenic mutations associated with #immuneFeatures in http://cri-iatlas.org The figure below displays a volcano plot with the degree of association between driver mutations and Leukocyte Fraction readouts across all tumors characterized by the #TCGA.
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Explore the immune cell proportions in #cancerGenomics datasets in http://cri-iatlas.org In the image, immune cell estimates for #TCGA samples grouped by immune subtype are plotted in a barplot. #immunoOncology #dataVisualization
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Zodiac map of cancer genetic interactions integrating #TCGA data--computed on Beagle #supercomputer jnci.oxfordjournals.org/content/107/8/djv129.ful...
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Study of #Cancer Dataset Yields Vital Shift in Perspective www.healthdatamanagement.com/news/study-of-cancer-dat... #TCGA
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