European Bioinformatics Institute

A global reference for human genetic variation

Twelve years of SAMtools and BCFtools

Abstract Background SAMtools and BCFtools are widely used programs for processing and analysing high-throughput sequencing data. They include tools for file format conversion an...

Inference of Macromolecular Assemblies from Crystalline State

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

We have developed a new set of algorithms, collectively called “Velvet,” to manipulate de Bruijn graphs for genomic sequence assembly. A de Bruijn graph is a compact representat...

AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models

Abstract The AlphaFold Protein Structure Database (AlphaFold DB, https://alphafold.ebi.ac.uk) is an openly accessible, extensive database of high-accuracy protein-structure pred...

The PRIDE database and related tools and resources in 2019: improving support for quantification data

This FAIRsharing record describes: The PRIDE PRoteomics IDEntifications (PRIDE) Archive database is a centralized, standards compliant, public data repository for mass spectrome...

Pfam: The protein families database in 2021

Abstract The Pfam database is a widely used resource for classifying protein sequences into families and domains. Since Pfam was last described in this journal, over 350 new fam...

The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences

Abstract The PRoteomics IDEntifications (PRIDE) database (https://www.ebi.ac.uk/pride/) is the world's largest data repository of mass spectrometry-based proteomics data. PRIDE ...

The Genome Sequence of <i>Drosophila melanogaster</i>

The fly Drosophila melanogaster is one of the most intensively studied organisms in biology and serves as a model system for the investigation of many developmental and cellular...

The Pfam protein families database in 2019

This FAIRsharing record describes: The Pfam database is a large collection of protein families, each represented by multiple sequence alignments and hidden Markov models (HMMs)....