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Coast-to-coast spread of SARS-CoV-2 in the United States revealed by genomic epidemiology.
Fauver JR, Petrone ME, Hodcroft EB, Shioda K, Ehrlich HY, Watts AG, Vogels CBF, Brito AF, Alpert T, Muyombwe A, Razeq J, Downing R, Cheemarla NR, Wyllie AL, Kalinich CC, Ott I, Quick J, Loman NJ, Neugebauer KM, Greninger AL, Jerome KR, Roychoudhury P, Xie H, Shrestha L, Huang ML, Pitzer VE, Iwasaki A, Omer SB, Khan K, Bogoch II, Martinello RA, Foxman EF, Landry ML, Neher RA, Ko AI, Grubaugh ND. Fauver JR, et al. Among authors: xie h. medRxiv [Preprint]. 2020 Mar 26:2020.03.25.20043828. doi: 10.1101/2020.03.25.20043828. medRxiv. 2020. Update in: Cell. 2020 May 28;181(5):990-996.e5. doi: 10.1016/j.cell.2020.04.021 PMID: 32511630 Free PMC article. Updated. Preprint.
Coast-to-Coast Spread of SARS-CoV-2 during the Early Epidemic in the United States.
Fauver JR, Petrone ME, Hodcroft EB, Shioda K, Ehrlich HY, Watts AG, Vogels CBF, Brito AF, Alpert T, Muyombwe A, Razeq J, Downing R, Cheemarla NR, Wyllie AL, Kalinich CC, Ott IM, Quick J, Loman NJ, Neugebauer KM, Greninger AL, Jerome KR, Roychoudhury P, Xie H, Shrestha L, Huang ML, Pitzer VE, Iwasaki A, Omer SB, Khan K, Bogoch II, Martinello RA, Foxman EF, Landry ML, Neher RA, Ko AI, Grubaugh ND. Fauver JR, et al. Among authors: xie h. Cell. 2020 May 28;181(5):990-996.e5. doi: 10.1016/j.cell.2020.04.021. Epub 2020 May 7. Cell. 2020. PMID: 32386545 Free PMC article.
Cryptic transmission of SARS-CoV-2 in Washington State.
Bedford T, Greninger AL, Roychoudhury P, Starita LM, Famulare M, Huang ML, Nalla A, Pepper G, Reinhardt A, Xie H, Shrestha L, Nguyen TN, Adler A, Brandstetter E, Cho S, Giroux D, Han PD, Fay K, Frazar CD, Ilcisin M, Lacombe K, Lee J, Kiavand A, Richardson M, Sibley TR, Truong M, Wolf CR, Nickerson DA, Rieder MJ, Englund JA; Seattle Flu Study Investigators; Hadfield J, Hodcroft EB, Huddleston J, Moncla LH, Müller NF, Neher RA, Deng X, Gu W, Federman S, Chiu C, Duchin J, Gautom R, Melly G, Hiatt B, Dykema P, Lindquist S, Queen K, Tao Y, Uehara A, Tong S, MacCannell D, Armstrong GL, Baird GS, Chu HY, Shendure J, Jerome KR. Bedford T, et al. Among authors: xie h. medRxiv [Preprint]. 2020 Apr 6:2020.04.02.20051417. doi: 10.1101/2020.04.02.20051417. medRxiv. 2020. Update in: Science. 2020 Oct 30;370(6516):571-575. doi: 10.1126/science.abc0523 PMID: 32511596 Free PMC article. Updated. Preprint.
Viral genomes reveal patterns of the SARS-CoV-2 outbreak in Washington State.
Müller NF, Wagner C, Frazar CD, Roychoudhury P, Lee J, Moncla LH, Pelle B, Richardson M, Ryke E, Xie H, Shrestha L, Addetia A, Rachleff VM, Lieberman NAP, Huang ML, Gautom R, Melly G, Hiatt B, Dykema P, Adler A, Brandstetter E, Han PD, Fay K, Llcisin M, Lacombe K, Sibley TR, Truong M, Wolf CR, Boeckh M, Englund JA, Famulare M, Lutz BR, Rieder MJ, Thompson M, Duchin JS, Starita LM, Chu HY, Shendure J, Jerome KR, Lindquist S, Greninger AL, Nickerson DA, Bedford T. Müller NF, et al. Among authors: xie h. medRxiv [Preprint]. 2020 Sep 30:2020.09.30.20204230. doi: 10.1101/2020.09.30.20204230. medRxiv. 2020. Update in: Sci Transl Med. 2021 May 26;13(595):eabf0202. doi: 10.1126/scitranslmed.abf0202 PMID: 33024981 Free PMC article. Updated. Preprint.
In vivo antiviral host response to SARS-CoV-2 by viral load, sex, and age.
Lieberman NAP, Peddu V, Xie H, Shrestha L, Huang ML, Mears MC, Cajimat MN, Bente DA, Shi PY, Bovier F, Roychoudhury P, Jerome KR, Moscona A, Porotto M, Greninger AL. Lieberman NAP, et al. Among authors: xie h. bioRxiv [Preprint]. 2020 Jun 22:2020.06.22.165225. doi: 10.1101/2020.06.22.165225. bioRxiv. 2020. Update in: PLoS Biol. 2020 Sep 8;18(9):e3000849. doi: 10.1371/journal.pbio.3000849 PMID: 32607510 Free PMC article. Updated. Preprint.
Phylogenetic estimates of SARS-CoV-2 introductions into Washington State.
Tordoff DM, Greninger AL, Roychoudhury P, Shrestha L, Xie H, Jerome KR, Breit N, Huang ML, Famulare M, Herbeck JT. Tordoff DM, et al. Among authors: xie h. Lancet Reg Health Am. 2021 Sep;1:100018. doi: 10.1016/j.lana.2021.100018. Epub 2021 Jul 13. Lancet Reg Health Am. 2021. PMID: 35013735 Free PMC article.
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