Publications

Wirbel J, Pyl PT, Kartal E, Zych K, Kashani A, Milanese A, Fleck JS, Voigt AY, Palleja A, Ponnudurai R, Sunagawa S, Coelho LP, Schrotz-King P, Vogtmann E, Habermann N, Niméus E, Thomas AM, Manghi P, Gandini S, Serrano D, Mizutani S, Shiroma H, Shiba S, Shibata T, Yachida S, Yamada T, Waldron L, Naccarati A, Segata N, Sinha R, Ulrich CM, Brenner H, Arumugam M, Bork P, Zeller G. Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer. Nat Med. 2019 Apr 1. doi: 10.1038/s41591-019-0406-6. [Epub ahead of print]

Beghini F, Renson A, Zolnik CP, Geistlinger L, Usyk M, Moody TU, Thorpe L, Dowd JB, Burk R, Segata N, Jones HE, Waldron L. Tobacco exposure associated with oral microbiota oxygen utilization in the New York City Health and Nutrition Examination Study. Ann Epidemiol. 2019 Mar 28. pii: S1047-2797(18)30677-X. doi: 10.1016/j.annepidem.2019.03.005. [Epub ahead of print]

Gopaulakrishnan S, Pollack S, Stubbs BJ, Pagès H, Readey J, Davis S, Waldron L, Morgan M, Carey V. restfulSE: A semantically rich interface for cloud-scale genomics with Bioconductor. F1000Res. 2019 Jan 7;8:21. doi: 10.12688/f1000research.17518.1. eCollection 2019.

Kelvin EA, George G, Kinyanjui S, Mwai E, Romo ML, Oruko F, Odhiambo JO, Nyaga EN, Mantell JE, Govender K. Announcing the availability of oral HIV self-test kits via text message to increase HIV testing among hard-to-reach truckers in Kenya: a randomized controlled trial. BMC Public Health. 2019 Jan 3;19(1):7. doi: 10.1186/s12889-018-6345-1.

Robertson MM, Braunstein SL, Hoover DR, Li S, Nash D. Timeliness of HIV Diagnosis and Antiretroviral Treatment Initiation in the Era of Universal Test and Treat. J Infect Dis. 2019 Apr 4. pii: jiz148. doi: 10.1093/infdis/jiz148. [Epub ahead of print]

Weinberger AH, Pacek LR, Wall MM, Gbedemah M, Lee J, Goodwin RD. Cigarette smoking quit ratios among adults in the USA with cannabis use and cannabis use disorders, 2002-2016. Tob Control. 2019 Apr 5. pii: tobaccocontrol-2018-054590. doi: 10.1136/tobaccocontrol-2018-054590. [Epub ahead of print]

Porsch LM, Zhang H, Dayananda I, Dean G. Comparing Receipt of Cervical Cancer Screening and Completion of Human Papillomavirus Vaccination Using a New Construct of Sexual Orientation: A Serial Cross-Sectional Study. LGBT Health. 2019 May 8. doi: 10.1089/lgbt.2018.0196. [Epub ahead of print]

Golub SA, Fikslin RA, Goldberg MH, Peña SM, Radix A. Predictors of PrEP Uptake Among Patients with Equivalent Access. AIDS Behav. 2019 Jan 1. doi: 10.1007/s10461-018-2376-y. [Epub ahead of print]

Ross J, Sinayobye JD, Yotebieng M, Hoover DR, Shi Q, Ribakare M, Remera E, Bachhuber MA, Murenzi G, Sugira V, Nash D, Anastos K; for Central Africa IeDEA. Early outcomes after implementation of treat all in Rwanda: an interrupted time series study. J Int AIDS Soc. 2019 Apr;22(4):e25279. doi: 10.1002/jia2.25279.

Rosenbaum J, Usyk M, Chen Z, Zolnik CP, Jones HE, Waldron L, Dowd JB, Thorpe LE, Burk RD. Evaluation of Oral Cavity DNA Extraction Methods on Bacterial and Fungal Microbiota. Sci Rep. 2019 Feb 6;9(1):1531. doi: 10.1038/s41598-018-38049-6.

Theodore DA, Goodwin RD, Zhang YV, Schneider N, Gordon RJ. History of Depression and Increased Risk of Sternal Wound Infection After Cardiothoracic Surgery: A Novel and Potentially Modifiable Risk Factor. Open Forum Infect Dis. 2019 Feb 15;6(3):ofz083. doi: 10.1093/ofid/ofz083. eCollection 2019 Mar.

Schiffer L, Azhar R, Shepherd L, Ramos M, Geistlinger L, Huttenhower C, Dowd JB, Segata N, Waldron L. HMP16SData: Efficient Access to the Human Microbiome Project through Bioconductor. Am J Epidemiol. 2019 Jan 10. doi: 10.1093/aje/kwz006. [Epub ahead of print]

Thomas AM, Manghi P, Asnicar F, Pasolli E, Armanini F, Zolfo M, Beghini F, Manara S, Karcher N, Pozzi C, Gandini S, Serrano D, Tarallo S, Francavilla A, Gallo G, Trompetto M, Ferrero G, Mizutani S, Shiroma H, Shiba S, Shibata T, Yachida S, Yamada T, Wirbel J, Schrotz-King P, Ulrich CM, Brenner H, Arumugam M, Bork P, Zeller G, Cordero F, Dias-Neto E, Setubal JC, Tett A, Pardini B, Rescigno M, Waldron L, Naccarati A, Segata N. Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation. Nat Med. 2019 Apr;25(4):667-678. doi: 10.1038/s41591-019-0405-7. Epub 2019 Apr 1.

Parcesepe AM, Nash D, Tymejczyk O, Reidy W, Kulkarni SG, Elul B. Gender, HIV-Related Stigma, and Health-Related Quality of Life Among Adults Enrolling in HIV Care in Tanzania. AIDS Behav. 2019 Mar 30. doi: 10.1007/s10461-019-02480-1. [Epub ahead of print]

McCarthy KJ, Gollub EL, Ralph L, van de Wijgert J, Jones HE. Hormonal contraceptives and the acquisition of sexually transmitted infections: an updated systematic review. Sex Transm Dis. 2019 Jan 8. doi: 10.1097/OLQ.0000000000000975. [Epub ahead of print]

DiLorenzo MA, Parcesepe A, Tymejczyk O, Hoffman S, Elul B, Weiser SD, Remien RH, Kulkarni SG, Gadisa T, Melaku Z, Nash D. Psychosocial Factors Associated with Food Insufficiency Among People Living with HIV/AIDS (PLWH) Initiating ART in Ethiopia. AIDS Behav. 2019 Apr 15. doi: 10.1007/s10461-019-02505-9. [Epub ahead of print]

Paschen-Wolff MM, Kelvin E, Wells BE, Campbell ANC, Grosskopf NA, Grov C. Changing Trends in Substance Use and Sexual Risk Disparities among Sexual Minority Women as a Function of Sexual Identity, Behavior, and Attraction: Findings from the National Survey of Family Growth, 2002-2015. Arch Sex Behav. 2019 Feb 12. doi: 10.1007/s10508-018-1333-1. [Epub ahead of print]

Joshi A, Arora A, Amadi-Mgbenka C, Mittal N, Sharma S, Malhotra B, Grover A, Misra A, Loomba M. Burden of household food insecurity in urban slum settings. PLoS One. 2019 Apr 2;14(4):e0214461. doi: 10.1371/journal.pone.0214461. eCollection 2019.

John SA, Rendina HJ, Starks TJ, Grov C, Parsons JT. Decisional Balance and Contemplation Ladder to Support Interventions for HIV Pre-Exposure Prophylaxis Uptake and Persistence. AIDS Patient Care STDS. 2019 Jan 17. doi: 10.1089/apc.2018.0136. [Epub ahead of print]

Wirbel J, Pyl PT, Kartal E, Zych K, Kashani A, Milanese A, Fleck JS, Voigt AY, Palleja A, Ponnudurai R, Sunagawa S, Coelho LP, Schrotz-King P, Vogtmann E, Habermann N, Niméus E, Thomas AM, Manghi P, Gandini S, Serrano D, Mizutani S, Shiroma H, Shiba S, Shibata T, Yachida S, Yamada T, Waldron L, Naccarati A, Segata N, Sinha R, Ulrich CM, Brenner H, Arumugam M, Bork P, Zeller G. Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer. Nat Med. 2019 Apr;25(4):679-689. doi: 10.1038/s41591-019-0406-6. Epub 2019 Apr 1.

Wiewel EW, Borrell LN, Jones HE, Maroko AR, Torian LV. Healthcare facility characteristics associated with achievement and maintenance of HIV viral suppression among persons newly diagnosed with HIV in New York City. AIDS Care. 2019 Mar 25:1-10. doi: 10.1080/09540121.2019.1595517. [Epub ahead of print]

Grov C, Flynn AWP, D'Angelo AB, Lopez-Rios J, Pantalone DW, Holloway IW, Parsons JT. Gay and Bisexual Men's Strategies to Maintain Daily Adherence to Their HIV Pre-exposure Prophylaxis (PrEP) Medication: Results from a Qualitative Study. Prev Sci. 2019 Jan 12. doi: 10.1007/s11121-019-0985-y. [Epub ahead of print]

Stevens ER, Nucifora KA, Irvine MK, Penrose K, Robertson M, Kulkarni S, Robbins R, Abraham B, Nash D, Braithwaite RS. Cost-effectiveness of HIV care coordination scale-up among persons at high risk for sub-optimal HIV care outcomes. PLoS One. 2019 Apr 25;14(4):e0215965. doi: 10.1371/journal.pone.0215965. eCollection 2019.

Whitfield THF, Jones SS, Wachman M, Grov C, Parsons JT, Rendina HJ. The Impact of Pre-Exposure Prophylaxis (PrEP) Use on Sexual Anxiety, Satisfaction, and Esteem Among Gay and Bisexual Men. J Sex Res. 2019 Feb 19:1-8. doi: 10.1080/00224499.2019.1572064. [Epub ahead of print]

Diniz WJS, Mazzoni G, Coutinho LL, Banerjee P, Geistlinger L, Cesar ASM, Bertolini F, Afonso J, de Oliveira PSN, Tizioto PC, Kadarmideen HN, Regitano LCA. Detection of Co-expressed Pathway Modules Associated With Mineral Concentration and Meat Quality in Nelore Cattle. Front Genet. 2019 Mar 13;10:210. doi: 10.3389/fgene.2019.00210. eCollection 2019.