Publications

Nabwera HM, Espinoza JL, Worwui A, Betts M, Okoi C, Sesay AK, Bancroft R, Agbla SC, Jarju S, Bradbury RS, Colley M, Jallow AT, Liu J, Houpt ER, Prentice AM, Antonio M, Bernstein RM, Dupont CL, Kwambana-Adams BA
Interactions between fecal gut microbiome, enteric pathogens, and energy regulating hormones among acutely malnourished rural Gambian children.
EBioMedicine. 2021-11-01; 73.103644.
PMID: 34695658
Torralba MG, Aleti G, Li W, Moncera KJ, Lin YH, Yu Y, Masternak MM, Golusinski W, Golusinski P, Lamperska K, Edlund A, Freire M, Nelson KE
Oral Microbial Species and Virulence Factors Associated with Oral Squamous Cell Carcinoma.
Microbial ecology. 2021-11-01; 82.4: 1030-1046.
PMID: 33155101
Torralba MG, Aleti G, Li W, Moncera KJ, Lin YH, Yu Y, Masternak MM, Golusinski W, Golusinski P, Lamperska K, Edlund A, Freire M, Nelson KE
Correction to: Oral Microbial Species and Virulence Factors Associated with Oral Squamous Cell Carcinoma.
Microbial ecology. 2021-11-01; 82.4: 1047.
PMID: 33219400
Valencia B, Stukel MR, Allen AE, McCrow JP, Rabines A, Palenik B, Landry MR
Relating sinking and suspended microbial communities in the California Current Ecosystem: digestion resistance and the contributions of phytoplankton taxa to export.
Environmental microbiology. 2021-11-01; 23.11: 6734-6748.
PMID: 34431195
Aevermann BD, Shannon CP, Novotny M, Ben-Othman R, Cai B, Zhang Y, Ye JC, Kobor MS, Gladish N, Lee AH, Blimkie TM, Hancock RE, Llibre A, Duffy D, Koff WC, Sadarangani M, Tebbutt SJ, Kollmann TR, Scheuermann RH
Machine Learning-Based Single Cell and Integrative Analysis Reveals That Baseline mDC Predisposition Correlates With Hepatitis B Vaccine Antibody Response.
Frontiers in immunology. 2021-10-29; 12.690470.
PMID: 34777332
Li W, Tapiainen T, Brinkac L, Lorenzi HA, Moncera K, Tejesvi M, Tejesvi MV, Salo J, Nelson KE
Vertical Transmission of Gut Microbiome and Antimicrobial Resistance Genes in Infants Exposed to Antibiotics at Birth.
The Journal of infectious diseases. 2021-10-13; 224.7: 1236-1246.
PMID: 32239170
Bakken TE, Jorstad NL, Hu Q, Lake BB, Tian W, Kalmbach BE, Crow M, Hodge RD, Krienen FM, Sorensen SA, Eggermont J, Yao Z, Aevermann BD, Aldridge AI, Bartlett A, Bertagnolli D, Casper T, Castanon RG, Crichton K, Daigle TL, Dalley R, Dee N, Dembrow N, Diep D, Ding SL, Dong W, Fang R, Fischer S, Goldman M, Goldy J, Graybuck LT, Herb BR, Hou X, Kancherla J, Kroll M, Lathia K, van Lew B, Li YE, Liu CS, Liu H, Lucero JD, Mahurkar A, McMillen D, Miller JA, Moussa M, Nery JR, Nicovich PR, Niu SY, Orvis J, Osteen JK, Owen S, Palmer CR, Pham T, Plongthongkum N, Poirion O, Reed NM, Rimorin C, Rivkin A, Romanow WJ, Sedeño-Cortés AE, Siletti K, Somasundaram S, Sulc J, Tieu M, Torkelson A, Tung H, Wang X, Xie F, Yanny AM, Zhang R, Ament SA, Behrens MM, Bravo HC, Chun J, Dobin A, Gillis J, Hertzano R, Hof PR, Höllt T, Horwitz GD, Keene CD, Kharchenko PV, Ko AL, Lelieveldt BP, Luo C, Mukamel EA, Pinto-Duarte A, Preissl S, Regev A, Ren B, Scheuermann RH, Smith K, Spain WJ, White OR, Koch C, Hawrylycz M, Tasic B, Macosko EZ, McCarroll SA, Ting JT, Zeng H, Zhang K, Feng G, Ecker JR, Linnarsson S, Lein ES
Comparative cellular analysis of motor cortex in human, marmoset and mouse.
Nature. 2021-10-06; 598.7879: 111-119.
PMID: 34616062
Aevermann BD, Aevermann B, Zhang Y, Novotny M, Keshk M, Bakken TE, Bakken T, Miller J, Miller JA, Hodge RD, Hodge R, Lelieveldt B, Lein ES, Lein E, Scheuermann RH
A machine learning method for the discovery of minimum marker gene combinations for cell type identification from single-cell RNA sequencing.
Genome research. 2021-10-01; 31.10: 1767-1780.
PMID: 34088715
Arnolds KL, Dahlin LR, Ding L, Wu C, Yu J, Xiong W, Zuniga C, Suzuki Y, Zengler K, Linger JG, Guarnieri MT
Biotechnology for secure biocontainment designs in an emerging bioeconomy.
Current opinion in biotechnology. 2021-10-01; 71.25-31.
PMID: 34091124
Cantwell AM, Singh H, Platt M, Yu Y, Lin YH, Ikeno Y, Hubbard G, Xiang Y, Gonzalez-Juarbe N, Dube PH
Kinetic Multi-omic Analysis of Responses to SARS-CoV-2 Infection in a Model of Severe COVID-19.
Journal of virology. 2021-09-27; 95.20: e0101021.
PMID: 34319784

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