Ultrafast and memory-efficient alignment of short DNA sequences to the human genome B Langmead, C Trapnell, M Pop, SL Salzberg Genome biology 10, 1-10, 2009 | 23522 | 2009 |
Structure, function and diversity of the healthy human microbiome C Huttenhower, D Gevers, R Knight, S Abubucker, JH Badger, ... Nature 486 (7402), 207, 2012 | 10285* | 2012 |
Metagenomic analysis of the human distal gut microbiome SR Gill, M Pop, RT DeBoy, PB Eckburg, PJ Turnbaugh, BS Samuel, ... Science 312 (5778), 1355-1359, 2006 | 5797 | 2006 |
A framework for human microbiome research BA Methé, KE Nelson, M Pop, HH Creasy, MG Giglio, C Huttenhower, ... Nature 486 (7402), 215, 2012 | 2424* | 2012 |
Evolution of genes and genomes on the Drosophila phylogeny AG Clark, MB Eisen, DR Smith, CM Bergman, B Oliver, TA Markow, ... Nature 450 (7167), 203-18, 2007 | 2244 | 2007 |
Differential abundance analysis for microbial marker-gene surveys JN Paulson, OC Stine, HC Bravo, M Pop Nature methods 10 (12), 1200-1202, 2013 | 2179 | 2013 |
The Genome Sequence of Trypanosoma cruzi, Etiologic Agent of Chagas Disease NM El-Sayed, PJ Myler, DC Bartholomeu, D Nilsson, G Aggarwal, ... Science 309 (5733), 409-415, 2005 | 1790 | 2005 |
Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440 KE Nelson, C Weinel, IT Paulsen, RJ Dodson, H Hilbert, ... Environmental microbiology 4 (12), 799-808, 2002 | 1643 | 2002 |
Statistical methods for detecting differentially abundant features in clinical metagenomic samples JR White, N Nagarajan, M Pop PLoS computational biology 5 (4), e1000352, 2009 | 1595 | 2009 |
ARDB—antibiotic resistance genes database B Liu, M Pop Nucleic acids research 37 (suppl_1), D443-D447, 2009 | 1369 | 2009 |
The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria TD Read, SN Peterson, N Tourasse, LW Baillie, IT Paulsen, KE Nelson, ... Nature 423 (6935), 81-86, 2003 | 990 | 2003 |
The genome of the protist parasite Entamoeba histolytica B Loftus, I Anderson, R Davies, UCM Alsmark, J Samuelson, P Amedeo, ... Nature 433 (7028), 865-868, 2005 | 984 | 2005 |
Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii JM Carlton, SV Angiuoli, BB Suh, TW Kooij, M Pertea, JC Silva, ... Nature 419 (6906), 512-519, 2002 | 909 | 2002 |
GAGE: A critical evaluation of genome assemblies and assembly algorithms SL Salzberg, AM Phillippy, A Zimin, D Puiu, T Magoc, S Koren, ... Genome research 22 (3), 557-567, 2012 | 884 | 2012 |
Critical assessment of metagenome interpretation—a benchmark of metagenomics software A Sczyrba, P Hofmann, P Belmann, D Koslicki, S Janssen, J Dröge, ... Nature methods 14 (11), 1063-1071, 2017 | 758 | 2017 |
Draft genome of the filarial nematode parasite Brugia malayi E Ghedin, S Wang, D Spiro, E Caler, Q Zhao, J Crabtree, JE Allen, ... Science 317 (5845), 1756-1760, 2007 | 723 | 2007 |
The dog genome: survey sequencing and comparative analysis EF Kirkness, V Bafna, AL Halpern, S Levy, K Remington, DB Rusch, ... Science 301 (5641), 1898-1903, 2003 | 722 | 2003 |
Integrating Hi-C links with assembly graphs for chromosome-scale assembly J Ghurye, A Rhie, BP Walenz, A Schmitt, S Selvaraj, M Pop, AM Phillippy, ... PLoS computational biology 15 (8), e1007273, 2019 | 692 | 2019 |
Bioinformatics challenges of new sequencing technology M Pop, SL Salzberg Trends in genetics 24 (3), 142-149, 2008 | 678 | 2008 |
Searching for SNPs with cloud computing B Langmead, MC Schatz, J Lin, M Pop, SL Salzberg Genome biology 10, 1-10, 2009 | 659 | 2009 |