Genomic Profile Tools



Welcome to Genomic Profile Tools Page of ImmCancer

On this page, we have enlisted tools developed to maintain genome profiles, which may be further used for designing cancer immunotherapy. The given table comprises genome profile repositories. The first column represents the Name of the database, and the rest of the columns represents the Year, Description, Reference, and working status of the database. Click on the headers to sort them accordingly.


NameYearDescriptionReferenceFunctional
UCSC Genome Browser 2009Open source web-based graphical viewer for the display of genome sequences and their annotations.Yes
Annovar 2010Tool for functional annotation of genetic variants from high-throughput sequencing dataYes
GATK 2010Variant Discovery in High-Throughput Sequencing DataYes
MUT‐TP53 2010Novel versatile matrix for statistical analysis of TP53 mutations in human cancerNo
Control-FREEC 2011Tool to assess copy number and allelic content using next-generation sequencing dataYes
ExomeCNV 2011Tool for for detection of copy-number variation and loss of heterozygosity detectionYes
ICGCArray Express 2011Cancer genomics data sets visualization, analysis and downloadYes
Mutation Assessor 2011Predicting the functional impact of protein mutations: application to cancer genomicsYes
MuSiC 2012Identifying mutational significance in cancer genomesYes
SomaticSniper 2012Tool for identification of somatic point mutations in whole genome sequencing dataYes
VarScan 2 2012Tool for somatic mutation and copy number alteration discovery in cancer Yes
CanDrA 2013Predicts cancer-type specific driver missense mutationsYes
CRAVAT 2013Tool for Cancer-related analysis of variants Yes
EXCAVATOR 2013Tool for detecting copy number variants from whole-exome sequencing dataYes
IntOGen 2013Summarizes somatic mutations, genes and pathways involved in tumorigenesisNo
PROGgeneV 2013gene expression based survival analysis web application for multiple cancersYes
ADTEx 2014Detection of somatic copy number variations (CNVs) and genotypes in tumour samplesYes
FunSeq2 2014Tool for prioritizing noncoding regulatory variants in cancerYes
FusionCatcher 2014Tool for finding somatic fusion genes in paired-end RNA-sequencing dataYes
Oncotator 2015Cancer variant annotation toolYES
PRECOG 2015Tool for prognostic landscape of genes and infiltrating immune cells across cancersYes
Sequenza 2015Tool to analyse allele-specific copy number and mutation profiles from tumor sequencing dataYes
SomInaClust 2015Detection of cancer genes based on somatic mutation patterns of inactivation and clusteringYes
MutationAligner 2016Recurrent mutation hot spots Yes
MutSpec 2016Analyses of somatic mutation spectra in human and mouse cancer genomesYes
VEP 2016Toolset for the analysis, annotation, and prioritization of genomic variants in coding and non-coding regionsYes
Anaconda 2017Tool designed for detecting and annotating somatic copy number alterationsYes
FireBrowse 2017Portal to the Broad Institute GDAC Firehose analysis pipeline for large-scale multi-platform omics data analysisYes
SynthEx 2017Tool for copy number alteration detection and tumor heterogeneity profilingYes
TSNAD 2017Tool for detecting cancer somatic mutations and neoantigen detectionYes
Maftools 2018Efficient and comprehensive analysis of somatic variants in cancerYes
MethSurv 2018Web tool for survival analysis based on DNA methylationYes
MuSiCa 2018Web application to implement mutational signatures analysis in cancer samplesYes
Mutalisk 2018Web-based somatic mutation analysis toolKit for genomic, transcriptional and epigenomic signaturesYes
MutationalPatterns 2018Comprehensive genome-wide analysis of mutational processesYes
TRGAted 2018Web-tool for survival analysis using protein data in TCGA Yes
VAReporter 2018Variant reporter for cancer research of massive parallel sequencingYes
AlloDriver 2019Method for the identification and analysis of cancer driver targetsYes
Cancer3D 2.0 2019Interactive analysis of 3D patterns of cancer mutations in cancer subsetsYes
CoMutPlotter 2019Web tool for visual summary of mutations in cancer cohortsYes
Gent2 2019Gene expression database of normal and Tumor tissueYes
MuTect2 2019Somatic variant caller that uses local assembly and realignment to detect SNVs and indelsYes
SigProfilerMatrixGenerator 2019Tool for visualizing and exploring patterns of small mutational eventsYes
VIC 2019Computational tool for assessing clinical impacts of somatic variantsYes
CaMuS 2020Tool to enable the study of mutational signatures in a small cohorts of poorly characterised tumour types.Yes
Oviz-Bio 2020Web-based platform for interactive cancer genomics data visualizationYes
SNPnexus 2020Web-server annotation tool for functional annotation of human genome sequence variationYes
UCSC Xena 2020Tool for visualizing and interpreting cancer genomics dataYes