Bioinformatics Resources
Public Databases
Genomic
- Cancer Single-cell Expression Map (CancerSCEM)
- Database of Genomic Structural Variation (dbVar)
- Database of Genotypes and Phenotypes(dbGaP)
- AlzBiomarker (Alzheimer’s-related biomarkers)
- International Genome Sample Resource (IGSR)
- Gene Expression Omnibus (GEO) Datasets
- Gene, GenBank, and RefSeq
- Genome Data Viewer (GDV)
*genetic information, e.g. DNA sequences, gene annotations, and variations in DNA
Clinical
- National Health and Nutrition Examination Survey (NHANES)
- Surveillance, Epidemiology, and End Results (SEER)
- Medical Information Mart for Intensive Care (MIMIC)
- AlzRisk (Alzheimer’s-related risk factors)
- The Cancer Proteome Atlas (TCPA)
- The Cancer Genome Atlas (TCGA)
*data related to patients’ medical history, diagnoses, treatment, and outcomes
Public Web Tools
Oncology-related tools
- CancerSCEM analyze modules (single-cell level)
- GDC Data Portal (genomic & clinical)
- UCSC Xena (genomic & clinical)
- TANRIC (lncRNA-focused)
- cBioPortal (multi-study)
Genome Browsers
Other tools
- RNAseq analysis on the Web (from raw data (fastQ) to QC to pathway analysis)
- WebGestalt (web-based gene set analysis tool; pathway analysis, ORA, etc)
- miEAA (miRNA-focused)
- RCoV19 (covid-related)