Publications

See my google scholar profile for an up-to-date list.
* denotes equal contribution
underlined denotes Davenport lab member

Kelliher JM, Rudolph M, Vangay P, Abbas A, Borton MA, Santistevan C, Davenport ER, Davenport DW, Erazo NG, Herman C, Karstens L, Kocurek B, Lutz HL, Myers KS, Ockert I, Rodriguez FE, Saunders JK, Smith ML, Vogtmann E, Windsor A, Wood-Charlson EM, Woodley L, Eloe-Fadrosh EA. Promoting cohort-based learning for community standards in microbiome research. Nature Microbiology

Jeganathan NA, Davenport ER, Yochum GS, and Koltun WA. The microbiome in diverticulitis. Current Opinion in Physiology. 2021;22
Amato KR, Arrieta M, Azad MB, Bailey MT, Broussard JL, Bruggeling CE, Claud EC, Costello EK, Davenport ER, Dutilh BE, Swain Ewald HA, Ewald P, Hanlon EC, Julion W, Keshavarzian A, Maurice CF, Miller GE, Preidis GA, Segurel L, Singer B, Subramanian S, Zhao L, and Kuzawa CW. The human gut microbiome and health inequities. PNAS. 2021;118(25)
Marderstein AR, Davenport ER, Kulm S, Van Hout CV, Elemento O, Clark AG. Leveraging phenotyping variability to identify genetic interactions in human phenotypes. American Journal of Human Genetics. 2021;108(1)

Gong X, Davenport ER, Wang D, Clark AG. Lack of spatial and temporal genetic structure of Anguilla japonica populations. Conservation Genetics. 2019
Kachoo P*, Eraso JM*, Beres SB, Olsen RJ, Zhu L, Nasser W, Bernard PE, Cantu CC., Ojeda Saavedtra M, José Arredondo M, Strope B, Do H, Kumaraswami M, Vuopio J, Gröndahl-Yli-Hannuksela K, Kristinsson KG, Gottfredsson M, Pesonen M, Pensar J, Davenport ER, Clark AG, Corander J, Caugant DA, Gaini S, Magnusses MD, Porter AR, DeLeoFR, and Musser JM. Integrated analysis of population genomics, transcriptomics and virulence provides novel insights into Streptococcus pyogenes pathogenesis. Nature Genetics. 2019;51(3)

Jha AR, Davenport ER, Gautam Y, Bhandari D, Tandukar S, Ng K, Holmes S, Prasad Gautam G, Bahadur Sherchand J, Bustamante CD, and Sonnenburg JL. Gut microbiome transition across a life gradient in Himalaya. PLoS Biology. 2018;16(11):e2005396 (epub 2018 Nov 15)

Davenport ER. Tooth be told, genetics influence oral microbiome. Cell Host & Microbe. 2017;22(3)
Davenport ER*, Sanders JG*, Song SJ, Amato KR, Clark AG, and Knight R. The human microbiome in evolution. BMC Biology. 2017;15:127
Goodrich JK, Davenport ER, Clark AG, and Ley RE. The relationship between the human genome and microbiome comes into view. Annual Reviews Genetics. 2017;51 (epub head of print)
Davenport ER. Tooth be told, genetics influences oral microbiome. Cell Host & Microbe. 2017;22(3) [Commentary - not peer reviewed]
Igartua C, Davenport ER, Gilad Y, Nicolae DL, Pinto J, and Ober C. Host genetic variation in mucosal immunity pathways influences the upper airway microbiome. Microbiome. 2017;5:16

Davenport ER, Goodrich JK, Bell JT, Spector TD, Ley RE, and Clark AG. ABO antigen and secretor statuses are not associated with gut microbiota composition in 1,500 twins. BMC Genomics. 2016;17:941
Beaumont M, Goodrich JK, Jackson MA, Yet I, Davenport ER, Vieira-Silva S, Debelius J, Pallister T, Mangino M, Raes J, Knight R, Clark AG, Ley RE, Spector TD, and Bell JT. Heritable components of the human fecal microbiome are associated with visceral fat. Genome Biology. 2016;17(1):189
Goodrich JK, Davenport ER, Beaumont M, Jackson MA, Knight R, Ober C, Spector TD, Bell JT, Clark AG, and Ley RE. Genetic determinants of the gut microbiome in UK twins. Cell Host & Microbe. 2016;19(5), 731-743
Goodrich JK*, Davenport ER*, Waters JL*, Clark AG, and Ley RE. Cross-species comparisons of host genetic associations with the microbiome. Science. 2016;352(6285), 532-535
Davenport ER .Elucidating the role of the host genome in shaping microbiome composition Gut Microbes. 2016;7(2), 178-184
Blischak JD, Davenport ER, Wilson G. A quick introduction to version control with Git and GitHub. PLoS Computational Biology. 2016;12(1):e1004668

Davenport ER, Cusanovich DA, Michelini K, Barreiro LB, Ober C, and Gilad Y. Genome-wide association studies of the human gut microbiota. PLoS One. 2015;10(11):e0140301

Zhou X, Cain CE, Myrthil M, Lewellen N, Michelini K, Davenport ER, Stephens M, Pritchard JK, and Gilad Y. Epigenetic modifications are associated with inter-species gene expression in primates. Genome Biology. 2014; 15(12):547.
Davenport ER, Mizrahi-Man O, Michelini K, Barreiro LB, Ober C, and Gilad Y. Seasonal variation in human gut microbiome composition. PloS One. 2014;9(3):e90731