List of lists of biological databases and tools

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....

March 8, 2025 · 294 words

A timeline of BioML

Keeping track of the ongoing stream of ML applications in biology (for better or worse) March 5, 2025: Prohormone prediction uncovers a non-incretin anti-obesity peptide Data The computational side of this project extracted canonical sequences from reviewed, secreted human genes retrieved from UniProtKB (an EMBL-EBI and SIB consortium). The resulting fasta was fairly small (~2000 records). However, these sequences were not training data; the subsequent bioactivity prediction tools relied on several academic, manually-curated peptide datasets: APD3, BioDADPep, BIOPEP-UWM, CancerPPD, CAMPR3, DBAASP, LAMP2, NeuroPedia, NeuroPep, PeptideDB, and SATPdb....

June 29, 2024 · 624 words

Test post

This is a neat test post

June 16, 2024 · 3 words