| # | Title | Journal | Year | Citations |
|---|
| 1 | The Genome Sequence of Drosophila melanogaster | Science | 2000 | 5,566 |
| 2 | Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation | Nucleic Acids Research | 2021 | 4,856 |
| 3 | Interactive Tree Of Life (iTOL) v4: recent updates and new developments | Nucleic Acids Research | 2019 | 4,604 |
| 4 | A cross-platform toolkit for mass spectrometry and proteomics | Nature Biotechnology | 2012 | 2,794 |
| 5 | Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation | Bioinformatics | 2007 | 2,609 |
| 6 | CONTIN: A general purpose constrained regularization program for inverting noisy linear algebraic and integral equations | Computer Physics Communications | 1982 | 2,557 |
| 7 | Proteome survey reveals modularity of the yeast cell machinery | Nature | 2006 | 2,347 |
| 8 | Automated protein model building combined with iterative structure refinement | Nature Structural Biology | 1999 | 2,328 |
| 9 | Errors in protein structures | Nature | 1996 | 1,987 |
| 10 | A versatile toolbox for PCR-based tagging of yeast genes: new fluorescent proteins, more markers and promoter substitution cassettes | Yeast | 2004 | 1,837 |
| 11 | Femtomole sequencing of proteins from polyacrylamide gels by nano-electrospray mass spectrometry | Nature | 1996 | 1,723 |
| 12 | Disruption of the glucocorticoid receptor gene in the nervous system results in reduced anxiety | Nature Genetics | 1999 | 1,632 |
| 13 | Predicting Changes in the Stability of Proteins and Protein Complexes: A Study of More Than 1000 Mutations | Journal of Molecular Biology | 2002 | 1,609 |
| 14 | Eukaryotic plankton diversity in the sunlit ocean | Science | 2015 | 1,551 |
| 15 | 20 years of the SMART protein domain annotation resource | Nucleic Acids Research | 2018 | 1,525 |
| 16 | SMART: recent updates, new developments and status in 2015 | Nucleic Acids Research | 2015 | 1,519 |
| 17 | Heteronuclear multidimensional NMR experiments for the structure determination of proteins in solution employing pulsed field gradients | Progress in Nuclear Magnetic Resonance Spectroscopy | 1999 | 1,490 |
| 18 | SMART 7: recent updates to the protein domain annotation resource | Nucleic Acids Research | 2012 | 1,462 |
| 19 | Twilight zone of protein sequence alignments | Protein Engineering, Design and Selection | 1999 | 1,446 |
| 20 | Histone Methyltransferase Activity of a Drosophila Polycomb Group Repressor Complex | Cell | 2002 | 1,416 |
| 21 | Reconstruction of Zebrafish Early Embryonic Development by Scanned Light Sheet Microscopy | Science | 2008 | 1,397 |
| 22 | Engineering stability in gene networks by autoregulation | Nature | 2000 | 1,385 |
| 23 | Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy | Nucleic Acids Research | 2011 | 1,361 |
| 24 | SMART: a web-based tool for the study of genetically mobile domains | Nucleic Acids Research | 2000 | 1,159 |
| 25 | Protein Disorder Prediction | Structure | 2003 | 1,119 |
| 26 | EEA1 links PI(3)K function to Rab5 regulation of endosome fusion | Nature | 1998 | 1,036 |
| 27 | Glucosylation of Rho proteins by Clostridium difficile toxin B | Nature | 1995 | 1,030 |
| 28 | The Genome of the Sea Urchin Strongylocentrotus purpuratus | Science | 2006 | 1,018 |
| 29 | The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans | Nature | 2008 | 1,006 |
| 30 | Accounting for technical noise in single-cell RNA-seq experiments | Nature Methods | 2013 | 929 |
| 31 | Self-organization of microtubules into bipolar spindles around artificial chromosomes in Xenopus egg extracts | Nature | 1996 | 921 |
| 32 | Bone and haematopoietic defects in mice lacking c-fos | Nature | 1992 | 910 |
| 33 | SMART: recent updates, new developments and status in 2020 | Nucleic Acids Research | 2021 | 899 |
| 34 | SMART 4.0: towards genomic data integration | Nucleic Acids Research | 2004 | 892 |
| 35 | SMART 5: domains in the context of genomes and networks | Nucleic Acids Research | 2006 | 884 |
| 36 | SMART 6: recent updates and new developments | Nucleic Acids Research | 2009 | 882 |
| 37 | Crystal structure at 1.92 Å resolution of the RNA-binding domain of the U1A spliceosomal protein complexed with an RNA hairpin | Nature | 1994 | 879 |
| 38 | A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks | Nature Biotechnology | 2000 | 860 |
| 39 | Cyclical DNA methylation of a transcriptionally active promoter | Nature | 2008 | 830 |
| 40 | The PHD finger: Implications for chromatin-mediated transcriptional regulation | Trends in Biochemical Sciences | 1995 | 817 |
| 41 | A Perfect Message | Cell | 1999 | 789 |
| 42 | Tomato bushy stunt virus at 2.9 Å resolution | Nature | 1978 | 779 |
| 43 | The head inducer Cerberus is a multifunctional antagonist of Nodal, BMP and Wnt signals | Nature | 1999 | 768 |
| 44 | Solving the structure of human H ferritin by genetically engineering intermolecular crystal contacts | Nature | 1991 | 758 |
| 45 | Germline regulatory element of Oct-4 specific for the totipotent cycle of embryonal cells | Development (Cambridge) | 1996 | 750 |
| 46 | Identification of attenuation and antitermination regulation in prokaryotes | Genome Biology | 2002 | 698 |
| 47 | The Immunoglobulin Fold Structural Classification, Sequence Patterns and Common Core | Journal of Molecular Biology | 1994 | 652 |
| 48 | Elucidating the folding problem of helical peptides using empirical parameters | Nature Structural and Molecular Biology | 1994 | 637 |
| 49 | Transmembrane helices predicted at 95% accuracy | Protein Science | 1995 | 628 |
| 50 | Conservation and prediction of solvent accessibility in protein families | Proteins: Structure, Function and Bioinformatics | 1994 | 623 |
