phosphoproteomics

There are 3 repositories under phosphoproteomics topic.

• broadinstitute / ssGSEA2.0

  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)

  ptm-seaptm-signaturesptm-sitespathway-enrichment-analysisgene-setsgseakseaptm-enrichment-analysisphosphoproteomics
  Language:R 227

• saezlab / cosmosR

  COSMOS (Causal Oriented Search of Multi-Omic Space) is a method that integrates phosphoproteomics, transcriptomics, and metabolomics data sets.

  metabolomic-dataproteomicsphosphoproteomicsdata-integrationtranscriptomicsnetwork-modelling
  Language:R 54

• PathwayAndDataAnalysis / causalpath

  A project for exploring differentially active signaling paths related to proteomics datasets

  computational-biologybioinformaticsproteomicsphosphoproteomicscausality-analysispathway-analysispathways
  Language:Java 33

• jdrudolph / photon

  PHOsphoproteomic dissecTiOn using Networks

  signaling-pathwayspathwaysbioinformaticsproteomicsphosphoproteomicsphosphorylationbiologybiological-data-analysissignaling-networks
  Language:Python 17

• biodavidjm / artMS

  Analytical R Tools for Mass Spectrometry

  mass-spectrometryproteomicsbioinformaticsap-msphosphoproteomicsquantitative-analysisbioconductoranalyticalanalysispost-translational-modification
  Language:R 14

• evocellnet / ptm_hotspots

  Estimate PTM hotspots in protein sequence alignments

  bioinformaticsphosphoproteomicsprotein-domains
  Language:Python 13

• liuzan-info / PhosMap

  An Ensemble Bioinformatic Platform to Empower Interactive Analysis of Quantitative Phosphoproteomics.

  phosphoproteomicsdocker-imagerpackagewebserver
  Language:R 6

• GumusLab / PhosNetVis

  PhosNetVis is a web-based platform for integrated kinase enrichment analyses and interactive 2D/3D network visualizations of phosphoproteomics datasets.

  data-visualizationnetwork-visualizationphosphoproteomicsproteomics3d-visualizationkinase-enrichment-analysis
  Language:JavaScript 3

• bzhanglab / DeepRescore2

  DeepRescore2: deep learning prediction boosts phosphoproteomics-based discoveries through improved phosphopeptide identification

  deep-learningphosphoproteomics
  Language:Python 2

• fpozoc / phosphoproteomics

  Some phosphoproteomics useful notebooks and sources

  bioinformaticsphosphoproteomicsproteomicsptmpython
  Language:Jupyter Notebook 1

• meyer-lab / DDMC

  Clusters phosphoproteomics data based on a combination of the sequence information and abundance changes over conditions.

  academic-projectcancerdrug-resistancephosphoproteomics
  Language:Python 1

• celiaccb / KinasesCommunityDetection

  Python pipeline to build empirical kinase networks and identify kinase signalling communities from quantitative phosphoproteomics data.

  cell-signallingcommunity-detectionkinaseskseaphosphoproteomics
  Language:HTML 0

• davwong47 / Circadian-proteomics

  Custom analysis of in vitro circadian proteomics and phosphoproteomics using multiple sets of 10plex TMT with two genotypes

  rcircadiancircadian-rhythmicitycircadian-rhythmscircadian-rhythmcircadian-clockproteomicsproteomics-dataproteomics-data-analysisphosphoproteomics
  Language:R 0

• lucasragr / Phosphosite_localization

  It assigns the phosphorylation site in protein

  glycoproteomicsmass-spectrometryphosphoproteomicsproteomeptm-identificationptmomics
  Language:R 0

• icervenka / phosphopep

  mass-spectrometrypeptidesphosphoproteomics
  Language:PHP