Global
- 2025 NAR database collection
- CellBase Github
- Database Commons
- Elixir bio.tools
- Global Biodata Coalition Resources
- Github Awesome Public Datasets - Biology
- Nucleic Acids Research (NAR) Database Summary Paper Category List
- OpenGene - Open Source Genomics Toolbox
- scverse packages
- Wikpedia: List of bioinformatics software
- Wikipedia: List of RNA-Seq bioinformatics tools
- Wikipedia: List of biological databases
- Wikipedia: List of biology journals
North America
- Alliance of Genome Resources
- Broad Institute Data, Software and Tools
- Broad Institute GATK Tool Documentation Index
- Broad Institute Github
- Caltech Pachter Lab Software (gget, kallisto, ffq)
- Chan Zuckerberg Biohub Network Tools
- Chan Zuckerberg CELLxGENE datasets
- DrugBank Data Library
- Harvard MCB Library Quicklinks
- Harvard Heng Li Software (minmap,bwa,seqtk, etc) Github
- Human Metabolome Database (HMDB) Downloads and other HMDB-curated databases
- Johns Hopkins Salzberg Lab Software
- Johns Hopkins Langmead Lab Software
- NCBI Resource List
- NCBI Github
- NCI Data Catalog
- NIH-supported Scientific Data Repositories
- NHGRI Tools and Resources
- NIAID Data Ecosystem
- NY Genome Center Satija Lab Software (seurat)
- RCSB - PDB
- Simons Foundation Github
- Stanford Cherry Lab Projects
- UCSC Genome Browser Tools
- UCSC Xena (Cancer Dataset Browser)
- UCSC tRNA Tools
- UCSD CCBB Github Repositories
- UCSD Pevzner Lab Software (SPAdes)
- UW Trapnell Lab Software (monocle, cufflinks)
Europe
- Babraham Institute Tools
- de.NBI (German Network for Bioinformatics Infrastructure) Services
- ELIXIR Core Data Resources
- EMBL-EBI data resources and tools
- Ensembl Tools
- Expasy - Swiss Bioinformatics Resource Portal
- French Institute of Bioinformatics Catalog
- OmicsDI Databases
- Ontologies Search List
- Phenol Explorer Downloads
- Phil Ewels Software (MultiQC)
- Seqera nf-core pipelines
- Theis Lab Software (single-cell genomics)
- Wellcome Sanger Institute Data Directory
- Wellcome Sanger Institute Tools Directory