| # | Title | Journal | Year | Citations |
|---|
| 1 | The Sequence of the Human Genome | Science | 2001 | 12,623 |
| 2 | Diversity of the Human Intestinal Microbial Flora | Science | 2005 | 6,617 |
| 3 | Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm | Nature Protocols | 2009 | 6,149 |
| 4 | Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation | Genome Research | 2017 | 5,620 |
| 5 | The Genome Sequence of Drosophila melanogaster | Science | 2000 | 5,566 |
| 6 | An Integrated Genomic Analysis of Human Glioblastoma Multiforme | Science | 2008 | 5,230 |
| 7 | Versatile and open software for comparing large genomes | Genome Biology | 2004 | 4,989 |
| 8 | TM4: A Free, Open-Source System for Microarray Data Management and Analysis | BioTechniques | 2003 | 4,443 |
| 9 | Metagenomic Analysis of the Human Distal Gut Microbiome | Science | 2006 | 3,964 |
| 10 | Complete genome sequence of Pseudomonas aeruginosa PAO1, an opportunistic pathogen | Nature | 2000 | 3,943 |
| 11 | Genome sequence of the human malaria parasite Plasmodium falciparum | Nature | 2002 | 3,881 |
| 12 | The complete genome sequence of the gastric pathogen Helicobacter pylori | Nature | 1997 | 3,405 |
| 13 | A Mammalian microRNA Expression Atlas Based on Small RNA Library Sequencing | Cell | 2007 | 3,390 |
| 14 | The Minimal Gene Complement of Mycoplasma genitalium | Science | 1995 | 2,530 |
| 15 | Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments | Genome Biology | 2008 | 2,484 |
| 16 | The Chlamydomonas Genome Reveals the Evolution of Key Animal and Plant Functions | Science | 2007 | 2,354 |
| 17 | Improved microbial gene identification with GLIMMER | Nucleic Acids Research | 1999 | 2,282 |
| 18 | Genome sequence, comparative analysis and haplotype structure of the domestic dog | Nature | 2005 | 2,215 |
| 19 | Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: Implications for the microbial "pan-genome" | Proceedings of the National Academy of Sciences of the United States of America | 2005 | 2,161 |
| 20 | Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome | Science | 2014 | 2,089 |
| 21 | Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi | Nature | 1997 | 1,985 |
| 22 | Mutation of a mutL homolog in hereditary colon cancer | Science | 1994 | 1,821 |
| 23 | [9] TM4 Microarray Software Suite | Methods in Enzymology | 2006 | 1,767 |
| 24 | The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific | PLoS Biology | 2007 | 1,757 |
| 25 | TIGR Gene Indices clustering tools (TGICL): a software system for fast clustering of large EST datasets | Bioinformatics | 2003 | 1,741 |
| 26 | Microarray data normalization and transformation | Nature Genetics | 2002 | 1,733 |
| 27 | DNA sequence of both chromosomes of the cholera pathogen Vibrio cholerae | Nature | 2000 | 1,723 |
| 28 | Ribosomally synthesized and post-translationally modified peptide natural products: overview and recommendations for a universal nomenclature | Natural Product Reports | 2013 | 1,692 |
| 29 | Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies | Nucleic Acids Research | 2003 | 1,597 |
| 30 | The genome sequence of the filamentous fungus Neurospora crassa | Nature | 2003 | 1,528 |
| 31 | Mutations of two P/WS homologues in hereditary nonpolyposis colon cancer | Nature | 1994 | 1,523 |
| 32 | Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea | Nature Biotechnology | 2017 | 1,512 |
| 33 | The Genome of the African Trypanosome Trypanosoma brucei | Science | 2005 | 1,496 |
| 34 | The Diploid Genome Sequence of an Individual Human | PLoS Biology | 2007 | 1,491 |
| 35 | The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus | Nature | 1997 | 1,460 |
| 36 | The Phaeodactylum genome reveals the evolutionary history of diatom genomes | Nature | 2008 | 1,458 |
| 37 | Complete genome sequence of USA300, an epidemic clone of community-acquired meticillin-resistant Staphylococcus aureus | Lancet, The | 2006 | 1,440 |
| 38 | Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans | Nature | 2009 | 1,405 |
| 39 | Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima | Nature | 1999 | 1,397 |
| 40 | Antibiotics in early life alter the murine colonic microbiome and adiposity | Nature | 2012 | 1,358 |
| 41 | TigrScan and GlimmerHMM: two open source ab initio eukaryotic gene-finders | Bioinformatics | 2004 | 1,323 |
| 42 | Computational analysis of microarray data | Nature Reviews Genetics | 2001 | 1,320 |
| 43 | A novel class of small RNAs bind to MILI protein in mouse testes | Nature | 2006 | 1,303 |
| 44 | Evolutionary and Biomedical Insights from the Rhesus Macaque Genome | Science | 2007 | 1,283 |
| 45 | The Genome Sequence of Trypanosoma cruzi, Etiologic Agent of Chagas Disease | Science | 2005 | 1,273 |
| 46 | Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus | Nature | 2005 | 1,272 |
| 47 | Identification of Vaccine Candidates Against Serogroup B Meningococcus by Whole-Genome Sequencing | Science | 2000 | 1,258 |
| 48 | Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae | Nature | 2005 | 1,250 |
| 49 | Assembling Single-Cell Genomes and Mini-Metagenomes From Chimeric MDA Products | Journal of Computational Biology | 2013 | 1,235 |
| 50 | Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440 | Environmental Microbiology | 2002 | 1,218 |
