| W-IQ-TREE: a fast online phylogenetic tool for maximum likelihood analysis | 2016/04/15 | English | 2,647 |
| PDB2PQR: an automated pipeline for the setup of Poisson-Boltzmann electrostatics calculations | 2004/07/01 | English | 2,615 |
| MetaboAnalyst 4.0: towards more transparent and integrative metabolomics analysis | 2018/05/14 | English | 2,610 |
| Animal mitochondrial genomes | 1999/04/01 | English | 2,574 |
| NCBI BLAST: a better web interface | 2008/05/19 | English | 2,561 |
| Telomere measurement by quantitative PCR | 2002/05/15 | | 2,545 |
| miRBase: integrating microRNA annotation and deep-sequencing data | 2010/10/30 | English | 2,524 |
| COSMIC: the Catalogue Of Somatic Mutations In Cancer | 2018/10/29 | English | 2,515 |
| WoLF PSORT: protein localization predictor | 2007/05/08 | English | 2,498 |
| Plant cis-acting regulatory DNA elements (PLACE) database: 1999 | 1999/01/01 | English | 2,483 |
| Pfam: The protein families database in 2021 | 2020/10/30 | English | 2,465 |
| The Gene Ontology Resource: 20 years and still GOing strong | 2018/11/05 | English | 2,442 |
| 2016 update of the PRIDE database and its related tools | 2015/11/02 | English | 2,411 |
| The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored | 2010/11/02 | English | 2,404 |
| miRBase: from microRNA sequences to function | 2018/11/13 | English | 2,379 |
| CDD: NCBI's conserved domain database | 2014/11/20 | English | 2,370 |
| ChEMBL: a large-scale bioactivity database for drug discovery | 2011/09/23 | English | 2,361 |
| PHASTER: a better, faster version of the PHAST phage search tool | 2016/05/03 | English | 2,345 |
| HMDB 4.0: the human metabolome database for 2018 | 2017/11/11 | English | 2,338 |
| The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences | 2021/11/01 | English | 2,324 |
| TIMER2.0 for analysis of tumor-infiltrating immune cells | 2020/05/22 | English | 2,315 |
| CDD: a Conserved Domain Database for the functional annotation of proteins | 2010/11/24 | English | 2,289 |
| The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update | 2018/05/22 | English | 2,254 |
| The NHGRI-EBI GWAS Catalog of published genome-wide association studies, targeted arrays and summary statistics 2019 | 2018/11/16 | English | 2,252 |
| An efficient algorithm for large-scale detection of protein families | 2002/04/01 | | 2,235 |
| WEGO: a web tool for plotting GO annotations | 2006/07/01 | English | 2,232 |
| The Pfam protein families database | 2004/01/01 | English | 2,230 |
| ClustVis: a web tool for visualizing clustering of multivariate data using Principal Component Analysis and heatmap | 2015/05/12 | English | 2,226 |
| Data, information, knowledge and principle: back to metabolism in KEGG | 2013/11/07 | English | 2,225 |
| Amplification efficiency: linking baseline and bias in the analysis of quantitative PCR data | 2009/02/22 | English | 2,218 |