| DADA2: High-resolution sample inference from Illumina amplicon data BJ Callahan, PJ McMurdie, MJ Rosen, AW Han, AJA Johnson, ... Nature methods 13 (7), 581-583, 2016 | 11005 | 2016 |
| Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2 E Bolyen, JR Rideout, MR Dillon, NA Bokulich, CC Abnet, GA Al-Ghalith, ... Nature biotechnology 37 (8), 852-857, 2019 | 6799* | 2019 |
| Exact sequence variants should replace operational taxonomic units in marker-gene data analysis BJ Callahan, PJ McMurdie, SP Holmes The ISME journal 11 (12), 2639-2643, 2017 | 1853 | 2017 |
| Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data NM Davis, DM Proctor, SP Holmes, DA Relman, BJ Callahan Microbiome 6 (1), 1-14, 2018 | 1024 | 2018 |
| Temporal and spatial variation of the human microbiota during pregnancy DB DiGiulio, BJ Callahan, PJ McMurdie, EK Costello, DJ Lyell, ... Proceedings of the National Academy of Sciences 112 (35), 11060-11065, 2015 | 845 | 2015 |
| Bioconductor workflow for microbiome data analysis: from raw reads to community analyses BJ Callahan, K Sankaran, JA Fukuyama, PJ McMurdie, SP Holmes F1000Research 5, 2016 | 575 | 2016 |
| Replication and refinement of a vaginal microbial signature of preterm birth in two racially distinct cohorts of US women BJ Callahan, DB DiGiulio, DSA Goltsman, CL Sun, EK Costello, ... Proceedings of the National Academy of Sciences 114 (37), 9966-9971, 2017 | 239 | 2017 |
| High-throughput amplicon sequencing of the full-length 16S rRNA gene with single-nucleotide resolution BJ Callahan, J Wong, C Heiner, S Oh, CM Theriot, AS Gulati, SK McGill, ... Nucleic acids research 47 (18), e103-e103, 2019 | 213 | 2019 |
| Consistent and correctable bias in metagenomic sequencing experiments MR McLaren, AD Willis, BJ Callahan Elife 8, e46923, 2019 | 200 | 2019 |
| Marine mammals harbor unique microbiotas shaped by and yet distinct from the sea EM Bik, EK Costello, AD Switzer, BJ Callahan, SP Holmes, RS Wells, ... Nature communications 7 (1), 1-13, 2016 | 167 | 2016 |
| Heterozygote advantage as a natural consequence of adaptation in diploids D Sellis, BJ Callahan, DA Petrov, PW Messer Proceedings of the National Academy of Sciences 108 (51), 20666-20671, 2011 | 166 | 2011 |
| Denoising PCR-amplified metagenome data MJ Rosen, BJ Callahan, DS Fisher, SP Holmes BMC bioinformatics 13 (1), 1-16, 2012 | 107 | 2012 |
| Multiomics modeling of the immunome, transcriptome, microbiome, proteome and metabolome adaptations during human pregnancy MS Ghaemi, DB DiGiulio, K Contrepois, B Callahan, TTM Ngo, ... Bioinformatics 35 (1), 95-103, 2019 | 99 | 2019 |
| Silva taxonomic training data formatted for DADA2 (Silva version 132) B Callahan Zenodo, 2018 | 87 | 2018 |
| Exploring the interplay between topology and secondary structural formation in the protein folding problem MS Cheung, JM Finke, B Callahan, JN Onuchic The Journal of Physical Chemistry B 107 (40), 11193-11200, 2003 | 67 | 2003 |
| Correlated evolution of nearby residues in Drosophilid proteins B Callahan, RA Neher, D Bachtrog, P Andolfatto, BI Shraiman PLoS genetics 7 (2), e1001315, 2011 | 52 | 2011 |
| Rapid evolution of adaptive niche construction in experimental microbial populations BJ Callahan, T Fukami, DS Fisher Evolution 68 (11), 3307-3316, 2014 | 46 | 2014 |
| Pathogen resistance may be the principal evolutionary advantage provided by the microbiome MR McLaren, BJ Callahan Philosophical Transactions of the Royal Society B 375 (1808), 20190592, 2020 | 41 | 2020 |
| Emergent gene order in a model of modular polyketide synthases B Callahan, M Thattai, BI Shraiman Proceedings of the National Academy of Sciences 106 (46), 19410-19415, 2009 | 34 | 2009 |
| Reproducible research workflow in R for the analysis of personalized human microbiome data B Callahan, D Proctor, D Relman, J Fukuyama, S Holmes Biocomputing 2016: Proceedings of the Pacific Symposium, 183-194, 2016 | 33 | 2016 |
Susan P HolmesProfessor of Statistics, Stanford UniversityVerified email at stat.stanford.edu
