Rene Niehus

Population-level faecal metagenomic profiling as a tool to predict antimicrobial resistance in Enterobacterales isolates causing invasive infections: An exploratory study across Cambodia, Kenya, and the UK.

Auguet OT, Niehus R, Gweon HS, Berkley JA, Waichungo J, Njim T, Edgeworth JD, Batra R, Chau K, Swann J, Walker SA, Peto TEA, Crook DW, Lamble S, Turner P, Cooper BS, Stoesser N.

EClinicalMedicine. 2021 Jun. 36:100910. PMID: 34124634

How to detect and reduce potential sources of biases in studies of SARS-CoV-2 and COVID-19.

Accorsi EK, Qiu X, Rumpler E, Kennedy-Shaffer L, Kahn R, Joshi K, Goldstein E, Stensrud MJ, Niehus R, Cevik M, Lipsitch M.

Eur J Epidemiol. 2021 Feb. 36(2):179-196. PMID: 33634345

Estimating internationally imported cases during the early COVID-19 pandemic.

Menkir TF, Chin T, Hay JA, Surface ED, De Salazar PM, Buckee CO, Watts A, Khan K, Sherbo R, Yan AWC, Mina MJ, Lipsitch M, Niehus R.

Nat Commun. 2021 01 12. 12(1):311. PMID: 33436574

Practical considerations for measuring the effective reproductive number, Rt.

Gostic KM, McGough L, Baskerville EB, Abbott S, Joshi K, Tedijanto C, Kahn R, Niehus R, Hay JA, De Salazar PM, Hellewell J, Meakin S, Munday JD, Bosse NI, Sherrat K, Thompson RN, White LF, Huisman JS, Scire J, Bonhoeffer S, Stadler T, Wallinga J, Funk S, Lipsitch M, Cobey S.

PLoS Comput Biol. 2020 12. 16(12):e1008409. PMID: 33301457

The gut microbiota is associated with immune cell dynamics in humans.

Schluter J, Peled JU, Taylor BP, Markey KA, Smith M, Taur Y, Niehus R, Staffas A, Dai A, Fontana E, Amoretti LA, Wright RJ, Morjaria S, Fenelus M, Pessin MS, Chao NJ, Lew M, Bohannon L, Bush A, Sung AD, Hohl TM, Perales MA, van den Brink MRM, Xavier JB.

Nature. 2020 12. 588(7837):303-307. PMID: 33239790

Addendum: Estimating clinical severity of COVID-19 from the transmission dynamics in Wuhan, China.

Wu JT, Leung K, Bushman M, Kishore N, Niehus R, de Salazar PM, Cowling BJ, Lipsitch M, Leung GM.

Nat Med. 2020 07. 26(7):1149-1150. PMID: 32661399

Practical considerations for measuring the effective reproductive number, Rt.

Gostic KM, McGough L, Baskerville EB, Abbott S, Joshi K, Tedijanto C, Kahn R, Niehus R, Hay J, De Salazar PM, Hellewell J, Meakin S, Munday J, Bosse NI, Sherrat K, Thompson RN, White LF, Huisman JS, Scire J, Bonhoeffer S, Stadler T, Wallinga J, Funk S, Lipsitch M, Cobey S.

medRxiv. 2020 Jun 20. PMID: 32607522

Quantifying antibiotic impact on within-patient dynamics of extended-spectrum beta-lactamase resistance.

Niehus R, van Kleef E, Mo Y, Turlej-Rogacka A, Lammens C, Carmeli Y, Goossens H, Tacconelli E, Carevic B, Preotescu L, Malhotra-Kumar S, Cooper BS.

Elife. 2020 05 07. 9. PMID: 32379042

Using observational data to quantify bias of traveller-derived COVID-19 prevalence estimates in Wuhan, China.

Niehus R, De Salazar PM, Taylor AR, Lipsitch M.

Lancet Infect Dis. 2020 07. 20(7):803-808. PMID: 32246905

Estimating the number of undetected COVID-19 cases exported internationally from all of China.

Menkir TF, Chin T, Hay J, Surface ED, De Salazar PM, Buckee CO, Watts A, Khan K, Sherbo R, Yan AWC, Mina M, Lipsitch M, Niehus R.

medRxiv. 2020 Mar 26. PMID: 32511613