Publications

The Journal of infectious diseases. 2021-10-13; 224.7: 1236-1246.
Vertical Transmission of Gut Microbiome and Antimicrobial Resistance Genes in Infants Exposed to Antibiotics at Birth
Li W, Tapiainen T, Brinkac L, Lorenzi HA, Moncera K, Tejesvi M, Tejesvi MV, Salo J, Nelson KE
PMID: 32239170
Nature. 2021-10-06; 598.7879: 111-119.
Comparative cellular analysis of motor cortex in human, marmoset and mouse
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
PMID: 34616062
Current opinion in biotechnology. 2021-10-01; 71.25-31.
Biotechnology for secure biocontainment designs in an emerging bioeconomy
Arnolds KL, Dahlin LR, Ding L, Wu C, Yu J, Xiong W, Zuniga C, Suzuki Y, Zengler K, Linger JG, Guarnieri MT
PMID: 34091124
Genome research. 2021-10-01; 31.10: 1767-1780.
A machine learning method for the discovery of minimum marker gene combinations for cell type identification from single-cell RNA sequencing
Aevermann BD, Aevermann B, Zhang Y, Novotny M, Keshk M, Bakken TE, Bakken T, Miller JA, Miller J, Hodge RD, Hodge R, Lelieveldt B, Lein ES, Lein E, Scheuermann RH
PMID: 34088715
Journal of virology. 2021-09-27; 95.20: e0101021.
Kinetic Multi-omic Analysis of Responses to SARS-CoV-2 Infection in a Model of Severe COVID-19
Cantwell AM, Singh H, Platt M, Yu Y, Lin YH, Ikeno Y, Hubbard G, Xiang Y, Gonzalez-Juarbe N, Dube PH
PMID: 34319784
Proceedings of the National Academy of Sciences of the United States of America. 2021-09-07; 118.36:
Influenza A viruses balance ER stress with host protein synthesis shutoff
Mazel-Sanchez B, Iwaszkiewicz J, Bonifacio JPP, Silva F, Niu C, Strohmeier S, Eletto D, Krammer F, Tan G, Zoete V, Hale BG, Schmolke M
PMID: 34479996
mSystems. 2021-08-31; 6.4: e0057121.
Pathogenic Vibrio Species Are Associated with Distinct Environmental Niches and Planktonic Taxa in Southern California (USA) Aquatic Microbiomes
Diner RE, Kaul D, Rabines A, Zheng H, Steele JA, Griffith JF, Allen AE
PMID: 34227831
Frontiers in genetics. 2021-08-30; 12.733674.
Rapid CRISPR/Cas9 Editing of Genotype IX African Swine Fever Virus Circulating in Eastern and Central Africa
Abkallo HM, Svitek N, Oduor B, Awino E, Henson SP, Oyola SO, Mwalimu S, Assad-Garcia N, Fuchs W, Vashee S, Steinaa L
PMID: 34527025
Microbiology resource announcements. 2021-08-26; 10.34: e0061521.
Draft Genome Sequence of Desulfurobacterium sp. Strain AV08, a Thermophilic Chemolithoautotroph Isolated from a Deep-Sea Hydrothermal Vent
Skoog EJ, Huber JA, Serres MH, Levesque A, Zeigler Allen L
PMID: 34435861

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