4/16/2023 0 Comments Panoply pricingA Next Generation Connectivity Map: L1000 Platform and the First 1,000,000 Profiles. Proteogenomics connects somatic mutations to signalling in breast cancer. PANOPLY: a cloud-based platform for automated and reproducible proteogenomic data analysis. Detailed documentation can be found here.Įmail with questions, comments or feedback.For a quick introduction and tour of PANOPLY, follow the tutorial.Users can also customize or create new pipelines and add their own tasks and integrate them into the PANOPLY. Mass spectrometry-based proteomics data amenable to analysis by PANOPLY includes isobaric label-based LC-MS/MS approaches like iTRAQ, TMT and TMTPro profiling the proteome and multiple PTM-omes including phospho-, acetyl-and ubiquitylomes. ![]() ![]() Most analysis modules include a report generation task that outputs a HTML interactive report summarizing results from the respective analysis tasks. PANOPLY provides a comprehensive collection of proteogenomic data analysis methods including sample QC (sample quality evaluation using profile plots and tumor purity scores (1), identify sample swaps, etc.), association analysis, RNA and copy number correlation (to proteome), connectivity map analysis (1 ,2), outlier analysis using BlackSheep (3), PTM-SEA (4), GSEA (5) and single-sample GSEA (6), consensus clustering, and multi-omic clustering using non-negative matrix factorization (NMF). The workspaces include all data, parameter settings and results.
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