A non-comprehensive list of websites and data resources relevant to research on healthy aging and longevity.
- Digital Aging Atlas
Catalog of age-related changes in molecular markers, gene expression, pathology, physiology, and psychology.
- Human Aging Genomic Resources
Includes the following databases:
- GenAge – curated database of genes related to human aging
- GenDR – genes associated with dietary restriction
- AnAge – comparative biology of aging
- LongevityMap – database of human genetic variants associated with longevity
- Human Mortality Database
Mortality and population data for 37 countries or areas.
- GWAS Resource for Age-related Traits
Collection of musculoskeletal GWAS results.
- NIA Population Studies Database
- NIA aging cell repository
Drug discovery/small molecules
- NIH Chemical Genomics Center
- High-Throughput Drug Screening Facility (at Memorial Sloan- Kettering)
3. NIH Pharmacogenomics Research Network
- Extramural Pharmacogenomics Research Network (PGRN)
PharmGKB is a comprehensive resource that curates knowledge about the impact of genetic variation on drug response for researchers and clinicians.
- DTP Data
Developmental Therapeutics Program at NCI/NIH.
- Molecular Library Centers (MLP)
NIH initiative designed to discover small molecules that interact with biologically important proteins and pathways and to provide open access to the bioassay and chemical data generated by its research centers.
Chemical structure database.
ChEMBL is a database of bioactive drug-like small molecules, it contains 2-D structures, calculated properties (e.g. logP, Molecular Weight, Lipinski Parameters, etc.) and abstracted bioactivities (e.g. binding constants, pharmacology and ADMET data). Includes molecular targets of small molecules where data is available.
- OpenEye cheminformatics software
Software to facilitate the identification of small molecules that target known proteins. Free academic licenses are available under some circumstances; contact them for more details.
Database of small molecule properties and targets.
The DrugBank database combines detailed drug (i.e. chemical, pharmacological and pharmaceutical) data with comprehensive drug target (i.e. sequence, structure, and pathway) information.
Database of drug-target interactions.
BindingDB is a database of measured binding affinities, focusing chiefly on the interactions of protein considered to be drug-targets with small, drug-like molecules.
STITCH is a resource to explore known and predicted interactions of chemicals and proteins. Chemicals are linked to other chemicals and proteins by evidence derived from experiments, databases and the literature.
- Mining the Druggable genome
Search for drug-gene interactions.
- NIA Interventions Testing Program
NIA’s ITP is a multi-institutional study investigating treatments with the potential to extend lifespan and delay disease and dysfunction in mice.
Human Genetic variation and annotation
- Wellcome Trust Sanger Institute
http://www.sanger.ac.uk/resources/databases/ genomics and related information
2. Genevar (GENe Expression VARiation)
Genevar is a platform of database and web services designed for integrative analysis and visualization of SNP-gene associations in eQTL (expression quantitative trait loci) studies.
Population genetic variation.
- 1000 Genomes project
Population genetic variation from next-gen sequencing of more than 1000 individuals from about 25 populations.
- Variant Annotation Tool
Used by the 1000 genomes project.
Perl scripts to annotate genetic variants.
- UCSC genome browser
Genomic annotation for many genomes across taxa. Data is downloadable.
- Geuvadis Data browser.
Displays eQTL results from approximately 100 samples from the 1000 genomes project. RNA levels measured using RNA-Seq, and genetic variation from 1000 genomes, resulting in a deep eQTL catalog.
Functional annotation of genetic variants. Houses eQTL results from a number of studies.
- GWAS catalog
- Roadmap Epigenomics
Functional annotation of genetic variation incorporating ENCODE data
Functional annotation of genetic variation incorporating ENCODE data, roadmap epigenome data, and eQTLs from GTex browser.
- Genotype-Tissue Expression (GTex)
eQTL browser can be found here:
- Database of genotypes and phenotypes (dbGaP)
- CHARGE consortium
Consortium of cohorts with genome-wide genetic data and age-related phenotypes.
- Michigan Center for Statistical Genetics
Useful data and software for genetic epidemiology
Prediction of miRNA targets
- eQTL resources at the Pritchard Lab
- Variant annotation software SnpEff
- Variant annotation software SG-Adviser
General genomics and molecular biology
- NIH National Center for Biotechnology Information (NCBI)
Resource of protein sequence and functional information.
- Gene Card
GeneCards is a database of human genes that provides genomic, proteomic, transcriptomic, genetic and functional information on all known and predicted human genes.
- Broad-Novartis Cancer Cell Line Encyclopedia (CCLE)
The Cancer Cell Line Encyclopedia (CCLE) project is a collaboration between the Broad Institute, and the Novartis Institutes for Biomedical Research and its Genomics Institute of the Novartis Research Foundation to conduct a detailed genetic and pharmacologic characterization of a large panel of human cancer models, to develop integrated computational analyses that link distinct pharmacologic vulnerabilities to genomic patterns and to translate cell line integrative genomics into cancer patient stratification.
- Gene Expression Omnibus
A public functional genomics data repository supporting MIAME-compliant data submissions. Array- and sequence-based data are accepted. Tools are provided to help users query and download experiments and curated gene expression profiles.
- Human Pathway Database
HPD is an integrated human pathway database providing comprehensive and combined view connecting human proteins, genes, RNAs, enzymes, signaling, metabolic reactions and gene regulatory events.
- Allen Brain Atlas
Gene expression in human brains.
Systematic discovery of non-obvious disease models and candidate genes.
- Jackson Lab Mouse Resources
- Transcription factor resources
JASPAR – http://jaspar.genereg.net/
Prediction of transcription factor motifs and binding sites:
Centipede – http://centipede.uchicago.edu/
Experimental transcription factor binding data
Database of known and predicted protein interactions. Interactions include direct and indirect associations derived from four sources: genomic context, high-throughput experiments, conserved coexpression, and text-mined published results.
eggNOG (evolutionary genealogy of genes: Non-supervised Orthologous Groups) is a database of orthologous groups of genes.
- Centers for Disease Control and Prevention Public Health Genomics Resources
This page contains an A – Z list of Web links to selected genomic resources. These resources are intended for researchers and practitioners, health care providers, health care payers/purchasers, policymakers, and the general public. New links will be added regularly.