| # | Title | Journal | Year | Citations |
|---|
| 1 | pROC: an open-source package for R and S+ to analyze and compare ROC curves | BMC Bioinformatics | 2011 | 8,498 |
| 2 | ExPASy: the proteomics server for in-depth protein knowledge and analysis | Nucleic Acids Research | 2003 | 4,128 |
| 3 | Genetic studies of body mass index yield new insights for obesity biology | Nature | 2015 | 3,823 |
| 4 | The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003 | Nucleic Acids Research | 2003 | 3,096 |
| 5 | The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000 | Nucleic Acids Research | 2000 | 2,603 |
| 6 | Genome-wide association analyses identify 44 risk variants and refine the genetic architecture of major depression | Nature Genetics | 2018 | 2,224 |
| 7 | Effects of KRAS, BRAF, NRAS, and PIK3CA mutations on the efficacy of cetuximab plus chemotherapy in chemotherapy-refractory metastatic colorectal cancer: a retrospective consortium analysis | Lancet Oncology, The | 2010 | 1,915 |
| 8 | Defining the role of common variation in the genomic and biological architecture of adult human height | Nature Genetics | 2014 | 1,818 |
| 9 | The Universal Protein Resource (UniProt) | Nucleic Acids Research | 2004 | 1,681 |
| 10 | The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1999 | Nucleic Acids Research | 1999 | 1,592 |
| 11 | Automated comparative protein structure modeling with SWISS‐MODEL and Swiss‐PdbViewer: A historical perspective | Electrophoresis | 2009 | 1,574 |
| 12 | SwissParam: A fast force field generation tool for small organic molecules | Journal of Computational Chemistry | 2011 | 1,485 |
| 13 | ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins | Nucleic Acids Research | 2006 | 1,428 |
| 14 | SwissDock, a protein-small molecule docking web service based on EADock DSS | Nucleic Acids Research | 2011 | 1,396 |
| 15 | BUSCO: Assessing Genome Assembly and Annotation Completeness | Methods in Molecular Biology | 2019 | 1,382 |
| 16 | New genetic loci link adipose and insulin biology to body fat distribution | Nature | 2015 | 1,328 |
| 17 | DNA-binding factors shape the mouse methylome at distal regulatory regions | Nature | 2011 | 1,203 |
| 18 | STITCH 5: augmenting protein–chemical interaction networks with tissue and affinity data | Nucleic Acids Research | 2016 | 1,112 |
| 19 | The evolution of gene expression levels in mammalian organs | Nature | 2011 | 1,080 |
| 20 | The ENZYME database in 2000 | Nucleic Acids Research | 2000 | 919 |
| 21 | The PROSITE database, its status in 2002 | Nucleic Acids Research | 2002 | 908 |
| 22 | The Origins of C 4 Grasslands: Integrating Evolutionary and Ecosystem Science | Science | 2010 | 899 |
| 23 | Strong Time Dependence of the 76-Gene Prognostic Signature for Node-Negative Breast Cancer Patients in the TRANSBIG Multicenter Independent Validation Series | Clinical Cancer Research | 2007 | 839 |
| 24 | A colorectal cancer classification system that associates cellular phenotype and responses to therapy | Nature Medicine | 2013 | 831 |
| 25 | A large-scale evaluation of computational protein function prediction | Nature Methods | 2013 | 789 |
| 26 | Meta-analysis of gene expression profiles in breast cancer: toward a unified understanding of breast cancer subtyping and prognosis signatures | Breast Cancer Research | 2008 | 765 |
| 27 | PROSITE, a protein domain database for functional characterization and annotation | Nucleic Acids Research | 2010 | 744 |
| 28 | Integrated Molecular Meta-Analysis of 1,000 Pediatric High-Grade and Diffuse Intrinsic Pontine Glioma | Cancer Cell | 2017 | 716 |
| 29 | Identification of molecular apocrine breast tumours by microarray analysis | Oncogene | 2005 | 694 |
| 30 | UniProtKB/Swiss-Prot, the Manually Annotated Section of the UniProt KnowledgeBase: How to Use the Entry View | Methods in Molecular Biology | 2016 | 624 |
| 31 | A Downstream Mediator in the Growth Repression Limb of the Jasmonate Pathway | Plant Cell | 2007 | 606 |
| 32 | ESTScan: a program for detecting, evaluating, and reconstructing potential coding regions in EST sequences | Proceedings | 1999 | 600 |
| 33 | Large-scale cis- and trans-eQTL analyses identify thousands of genetic loci and polygenic scores that regulate blood gene expression | Nature Genetics | 2021 | 590 |
| 34 | UniProtKB/Swiss-Prot | | 2007 | 569 |
| 35 | A stroma-related gene signature predicts resistance to neoadjuvant chemotherapy in breast cancer | Nature Medicine | 2009 | 566 |
| 36 | Identification and consequences of miRNA–target interactions — beyond repression of gene expression | Nature Reviews Genetics | 2014 | 556 |
| 37 | Rare and low-frequency coding variants alter human adult height | Nature | 2017 | 544 |
| 38 | Early evolution of the venom system in lizards and snakes | Nature | 2006 | 531 |
| 39 | Macromolecular modeling and design in Rosetta: recent methods and frameworks | Nature Methods | 2020 | 513 |
| 40 | Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project | Nature Biotechnology | 2008 | 506 |
| 41 | Protein interaction data curation: the International Molecular Exchange (IMEx) consortium | Nature Methods | 2012 | 500 |
| 42 | Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling | Plant Journal | 2012 | 498 |
| 43 | Distal and proximal colon cancers differ in terms of molecular, pathological, and clinical features | Annals of Oncology | 2014 | 498 |
| 44 | Mass spectrometry in high-throughput proteomics: ready for the big time | Nature Methods | 2010 | 465 |
| 45 | A quantitative analysis of CLIP methods for identifying binding sites of RNA-binding proteins | Nature Methods | 2011 | 460 |
| 46 | A Higher Mutational Burden in Females Supports a “Female Protective Model” in Neurodevelopmental Disorders | American Journal of Human Genetics | 2014 | 457 |
| 47 | The SWISS-MODEL Repository: new features and functionalities | Nucleic Acids Research | 2006 | 454 |
| 48 | A genomic history of Aboriginal Australia | Nature | 2016 | 439 |
| 49 | The Cellosaurus, a Cell-Line Knowledge Resource | Journal of Biomolecular Techniques | 2018 | 437 |
| 50 | GlycoMod - A software tool for determining glycosylation compositions from mass spectrometric data | Proteomics | 2001 | 434 |
