PeCan

St, Jude Children’s Research Hospital – Pediatric Cancer Genomic Data Portal

St, Jude Children’s Research Hospital

Code updated: Fri Nov 05 2021, server launched: Fri Nov 05 2021 16:59:48, Running BLAT

Visualization Community

ProteinPaint is the flagship protein-based visualization tool created at St, Jude, You can use it to examine the domains of genes, known isoforms of a given gene, hotspot mutations for single nucleotide variations SNVs, insertions and deletions Indels, and structual variations SVs in both pediatric and adult cancers, and RNA-seq expression of a given protein in different tumour types,

PeCan

St, Jude Children’s Research Hospital – Pediatric Cancer Genomic Data Portal

St, Jude Genome Paint

GenomePaint visualizes somatic coding and noncoding alterations from ~3,800 pediatric tumors, along with multi-omics information to reveal oncogene activation by noncoding alterations, enhancer hijacking, aberrant splicing, mutual-exclusivity, mutation signature, and perform Kaplan-Meier analysis,It can be used to visualize your own data with easy customization and embedding on your own page,

Visualization Community

Protein Paint, ProteinPaint Dynamic visualization of protein-coding mutations and gene fusions, Explore variant data collected from 5,161 pediatric cancer genomes published by St Jude, NCI TARGET, German DKFZ, and China SCMC, Genome Paint, GenomePaint Genome browser for coding and non-coding variants in individual cancer genomes and across subtype cohorts,

PeCan

Pan-cancer genome and transcriptome analyses of pediatric leukaemias and solid tumours, Heatmap of genomic mutation data for multiple pediatric leukemias and solid tumors, Here samples columns are grouped by cancer subtype; genes rows harboring mutations are grouped by functional class, The color for each type of genetic alteration is defined,

Survivorship

These St, Jude departments collaborated to produce this web application: Global Pediatric Medicine, Epidemiology and Cancer Control, and Computational Biology, About the Data, The SJLIFE Study cohort was established in 2007 to address knowledge deficits about the health of 5-year survivors of cancer diagnosed during childhood and adolescence and treated at St, Jude Children’s Research

PeCan

St, Jude Children’s Research Hospital, St, Jude Children’s Research Hospital, 33 3, Jun 1, 2018, PMID 29778738 < 1k, Whole Genome Sequencing Whole Exome Sequencing RNA Sequencing Methylation Array Heatmap summarizing recurrently altered genes, frequent cytogenetic events, and sample annotations according to medulloblastoma subgroup n=190, Heatmap representative of Robinson et …

ProteinPaint: Web Application for Visualizing Genomic Data

In addition to data from the St, Jude Children’s Research Hospital—Washington University Pediatric Cancer Genome Project, the National Cancer Institute’s Therapeutically Applicable Research to Generate Effective Treatments TARGET initiative and other published pediatric cancer studies can be incorporated as well, It currently includes information on almost 27,500 mutations discovered

Platform

Platform , St, Jude Cloud

ProteinPaint: Making Data Beautiful

St, Jude opens the first proton therapy center designed just for children, Going Global: Taking St, Jude to the World St, Jude expands its mission to the most remote parts of the globe, Tyler’s Treehouse A little boy’s legacy may help save the lives of kids with a rare brain tumor, Accelerating Progress Through Global Collaboration St, Jude prepares to greatly increase the number of children

ProteinPaint

St, Jude Cloud Documentation ProteinPaint Type to start searching stjudecloud/docs Overview Genomics Platform PeCan a substitution variant in the coding region resulting in altered protein coding: FRAMESHIFT: an insertion or deletion variant that alters the protein coding frame: NONSENSE : a variant altering protein coding to produce a premature stopgain or stoploss, PROTEINDEL: a …

Embedding ProteinPaint

If set, will hide all legends when showing a gene mutation class, mutation origin, protein domains Prediction of motif change caused by mutation ¶ Given a sequence mutation, PP will run fimo to predict motifs using the reference sequence at the mutation site with a bit of flanking; then will mutate the sequence, and run fimo again on the mutated sequence,

ProteinPaint Helps St, Jude Researchers to Mine Cancer

Today, roughly 8 out of 10 of the children treated at St, Jude defeat “the Big C” – an inspiring statistic when compared with the 20 percent survival rate for pediatric cancer patients when St, Jude first opened its doors, So, it came as no surprise to fans of the revered hospital when they learned late last month that several of St, Jude’s newest generation of cancer fighters had