Inferring HIV Transmission Patterns from Viral Deep-Sequence Data via Latent Typed Point Processes

Authors: Bu, Fan, Kagaayi, Joseph, Grabowski, Kate, Ratmann, Oliver, Xu, Jason

Subject Terms: Statistics - Methodology, Statistics - Applications

Access URL: http://arxiv.org/abs/2302.11567

Inferring the sources of HIV infection in Africa from deep sequence data with semi-parametric Bayesian Poisson flow models

Authors: Xi, Xiaoyue, Spencer, Simon EF, Hall, Matthew, Grabowski, M Kate, Kagaayi, Joseph, Ratmann, Oliver

Subject Terms: Statistics - Applications

Access URL: http://arxiv.org/abs/2110.12273

Demographics of sources of HIV-1 transmission in Zambia: a molecular epidemiology analysis in the HPTN 071 PopART study

Authors: Agyei, Yaw, Beyers, Nulda, Bock, Peter, Bond, Virginia, Bwalya, Justin, Cori, Anne, Deventer, Anneen, Dunbar, Rory, El-Sadr, Wafaa, Emel, Lynda, Floyd, Sian, Griffith, Sam, Hargreaves, James, Hauck, Katharina, Headen, Tanette, Hoddinott, Graeme, James, Anelet, Jennings, Karen, Kanema, Sarah, Kosloff, Barry, Kruger, James, Kumar, Ramya, Macleod, David, Makola, Nozizwe, Mandla, Nomtha, Miller, Eric, Moore, Ayana, Mwenge, Lawrence, Noble, Heather, Phiri, Mwelwa, Pickles, Michael, Sabapathy, Kalpana, Sakala, Ephraim, Sauter, Rafael, Shanaube, Kwame, Silumesi, Andrew, Sista, Nirupama, Skalland, Tim, Smith, Peter, Thomas, Ranjeeta, Vermund, Sten, White, Rhonda, Wilson, Ethan, Yang, Blia, Yuhas, Krista, Bowden, Rory, Calvez, Vincent, Essex, Max, Grabowski, Kate, Gupta, Ravindra, Herbeck, Joshua, Kagaayi, Joseph, Kaleebu, Pontiano, Lingappa, Jairam, Moyo, Sikhulile, Novitsky, Vladimir, Ndung’u, Thumbi, Pillay, Deenan, Quinn, Thomas, Rambaut, Andrew, Seeley, Janet, Ssemwanga, Deogratius, Tanser, Frank, Wawer, Maria, Hall, Matthew, Golubchik, Tanya, Bonsall, David, Abeler-Dörner, Lucie, Limbada, Mohammed, Schaap, Ab, de Cesare, Mariateresa, MacIntyre-Cockett, George, Otecko, Newton, Probert, William, Ratmann, Oliver, Bulas Cruz, Ana, Piwowar-Manning, Estelle, Burns, David N, Cohen, Myron S, Donnell, Deborah J, Eshleman, Susan H, Simwinga, Musonda, Fidler, Sarah, Hayes, Richard, Ayles, Helen, Fraser, Christophe

Source: In The Lancet Microbe January 2024 5(1):e62-e71

A moving target: impacts of lowering viral load suppression cutpoints on progress towards HIV epidemic control goals

Authors: Rosen, Joseph G., Reynolds, Steven J., Galiwango, Ronald M., Kigozi, Godfrey, Quinn, Thomas C., Ratmann, Oliver, Ndyanabo, Anthony, Nelson, Lisa J., Nakigozi, Gertrude, Nalugemwa, Margaret, Rucinski, Katherine B., Kennedy, Caitlin E., Chang, Larry W., Kagaayi, Joseph, Serwadda, David, Grabowski, M. Kate

Source: AIDS. 37(9):1486-1489

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100194429655.0x000001&indx=1&recIds=ETOCvdc_100194429655.0x000001

Dynamics of Pre-Exposure (PrEP) Eligibility Because of Waxing and Waning of HIV Risk in Rakai, Uganda

Authors: Ssempijja, Victor, Ssekubugu, Robert, Kigozi, Godfrey, Nakigozi, Gertrude, Kagaayi, Joseph, Ekstrom, Anna Mia, Nalugoda, Fred, Nantume, Betty, Batte, James, Kigozi, Grace, Yeh, Ping Teresa, Nakawooya, Hadijja, Serwadda, David, Quinn, Thomas C., Gray, Ronald H., Wawer, Maria J., Grabowski, Kate M., Chang, Larry W., Hoog, Anja van't, Cobelens, Frank, Reynolds, Steven J.

Source: Journal of acquired immune deficiency syndromes. 93(2):143-153

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100191136320.0x000001&indx=1&recIds=ETOCvdc_100191136320.0x000001

In the era of universal test and treat in Uganda, recent intimate partner violence is not associated with subsequent ART use or viral suppression

Authors: Miller, Amanda P., Pitpitan, Eileen V., Kiene, Susan M., Raj, Anita, Jain, Sonia, Zúñiga, María Luisa, Nabulaku, Dorean, Nalugoda, Fred, Ssekubugu, Robert, Nantume, Betty, Kigozi, Godfrey, Sewankambo, Nelson K., Kagaayi, Joseph, Reynolds, Steven J., Wawer, Maria, Wagman, Jennifer A.

Source: AIDS care. 35(9):1291-1298

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100187634457.0x000001&indx=1&recIds=ETOCvdc_100187634457.0x000001

High Acceptability and Perceived Feasibility of Long-Acting Injectable Antiretroviral Treatment Among People Living with HIV Who Are Viremic and Health Workers in Uganda

Authors: Kennedy, Caitlin E., Zhao, Tongying, Vo, Anh Van, Nakubulwa, Rosette, Nabakka, Proscovia, Jackson, Jade, Rosen, Joseph G., Chang, Larry W., Reynolds, Steven J., Quinn, Thomas C., Nakigozi, Gertrude, Kigozi, Godfrey, Kagaayi, Joseph, Nalugoda, Fred, Ddaaki, William G., Grabowski, M. Kate, Nakyanjo, Neema

Source: Aids patient care and STDs. 37(6):316-322

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100184923162.0x000001&indx=1&recIds=ETOCvdc_100184923162.0x000001

Identifying longitudinal patterns of HIV treatment (dis)engagement and re-engagement from oral histories of virologically unsuppressed persons in Uganda: A thematic trajectory analysis

Authors: Rosen, Joseph G., Nakyanjo, Neema, Ddaaki, William G., Zhao, Tongying, Van Vo, Anh, Nakubulwa, Rosette, Ssekyewa, Charles, Isabirye, Dauda, Katono, Ruth L., Nabakka, Proscovia, Ssemwanga, Richard J., Kigozi, Grace, Odiya, Silas, Nakigozi, Gertrude, Nalugoda, Fred, Kigozi, Godfrey, Kagaayi, Joseph, Grabowski, M. Kate, Kennedy, Caitlin E.

Source: In Social Science & Medicine December 2023 339

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The HIV and sexually transmitted infection syndemic following mass scale-up of combination HIV interventions in two communities in southern Uganda: a population-based cross-sectional study

Authors: Nabukalu, Dorean, Ndyanabo, Anthony, Ssekasanvu, Joseph, Nakawooya, Hadijja, Nakukumba, Jessica, Kigozi, Grace N., Nantume, Betty S., Resty, Nampijja, Kambasu, Jedidah, Nalugemwa, Margaret, Nakabuye, Regina, Ssebanobe, Lawrence, Nankinga, Justine, Kayiira, Adrian, Nanfuka, Gorreth, Ahimbisibwe, Ruth, Tomusange, Stephen, Galiwango, Ronald M., Nakalanzi, Margaret, Nalukwago, Aisha, Otobi, Joseph Ouma, Ankunda, Denis, Ssembatya, Joseph Lister, Ssemanda, John Baptist, Kairania, Robert, Kato, Emmanuel, Kisakye, Alice, Batte, James, Ludigo, James, Nampijja, Abisagi, Watya, Steven, Nehemia, Kighoma, Anyokot, Sr Margaret, Mwinike, Joshua, Kibumba, George, Ssebowa, Paschal, Mondo, George, Wasswa, Francis, Nantongo, Agnes, Kakembo, Rebecca, Galiwango, Josephine, Ssemango, Geoffrey, Redd, Andrew D., Santelli, John, Laeyendecker, Oliver, Wagman, Jennifer, Fernandez, Rey, Sewankambo, Nelson, Ogale, Yasmin, Grabowski, M Kate ^*, Mpagazi, Josephine, Kiboneka, Stephen, Ssekubugu, Robert, Kereba, John Baptiste, Nakayijja, Annet, Tukundane, Julius, Jackson, Jade C, Peer, Austin D, Kennedy, Caitlin, Kigozi, Godfrey, Galiwango, Ronald M, Manabe, Yukari C, Chang, Larry W, Kalibala, Sarah, Gray, Ronald H, Wawer, Maria J, Reynolds, Steven J, Tobian, Aaron A R, Serwadda, David, Gaydos, Charlotte A, Kagaayi, Joseph ^†, Quinn, Thomas C ^†

Source: In The Lancet Global Health December 2022 10(12):e1825-e1834

The HIV and sexually transmitted infection syndemic following mass scale-up of combination HIV interventions in two communities in southern Uganda: a population-based cross-sectional study

Authors: Grabowski, M Kate, Mpagazi, Josephine, Kiboneka, Stephen, Ssekubugu, Robert, Kereba, John Baptiste, Nakayijja, Annet, Tukundane, Julius, Jackson, Jade C, Peer, Austin D, Kennedy, Caitlin, Kigozi, Godfrey, Galiwango, Ronald M, Manabe, Yukari C, Chang, Larry W, Kalibala, Sarah, Gray, Ronald H, Wawer, Maria J, Reynolds, Steven J, Tobian, Aaron A R, Serwadda, David, Gaydos, Charlotte A, Kagaayi, Joseph, Quinn, Thomas C

Source: Lancet.Global health. 10(12):e1825-e1834

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100184258822.0x000001&indx=1&recIds=ETOCvdc_100184258822.0x000001

Brief Report: Mobile Phones, Sexual Behaviors, and HIV Incidence in Rakai, Uganda, From 2010 to 2018

Authors: Kreniske, Philip, Nalugoda, Fred, Chen, Ivy, Huang, Rui, Wei, Ying, Chang, Larry, Ssekubugu, Robert, Lutalo, Tom, Kigozi, Godfrey, Kagaayi, Joseph, Sewankambo, Nelson, Grabowski, M. Kate, Gray, Ronald, Serwadda, David, Santelli, John

Source: Journal of acquired immune deficiency syndromes. 89(4):361-365

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100155078942.0x000001&indx=1&recIds=ETOCvdc_100155078942.0x000001

Working with economically vulnerable women engaged in sex work: Collaborating with community stakeholders in Southern Uganda

Authors: Nabunya, Proscovia, Kiyingi, Joshua, Witte, Susan S., Sensoy Bahar, Ozge, Jennings Mayo-Wilson, Larissa, Tozan, Yesim, Nabayinda, Josephine, Mwebembezi, Abel, Tumwesige, Wilberforce, Mukasa, Barbara, Namirembe, Rashida, Kagaayi, Joseph, Nakigudde, Janet, McKay, Mary M., Ssewamala, Fred M.

Source: Global public health. 17(7):1215-1231

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100160785849.0x000001&indx=1&recIds=ETOCvdc_100160785849.0x000001

Inferring the sources of HIV infection in Africa from deep‐sequence data with semi‐parametric Bayesian Poisson flow models

Authors: Xi, Xiaoyue, Spencer, Simon E. F., Hall, Matthew, Grabowski, M. Kate, Kagaayi, Joseph, Ratmann, Oliver

Source: Journal of the Royal Statistical Society.Series C.Applied statistics. 71(3):517-540

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100154038097.0x000001&indx=1&recIds=ETOCvdc_100154038097.0x000001

High Rates of Pre-exposure Prophylaxis Eligibility and Associated HIV Incidence in a Population With a Generalized HIV Epidemic in Rakai, Uganda

Authors: Ssempijja, Victor, Nakigozi, Gertrude, Ssekubugu, Robert, Kagaayi, Joseph, Kigozi, Godfrey, Nalugoda, Fred, Nantume, Betty, Batte, James, Kigozi, Grace, Yeh, Ping Teresa, Nakawooya, Hadijja, Serwadda, David, Quinn, Thomas C., Gray, Ronald H., Wawer, Maria J., Grabowski, Kate M., Chang, Larry W., van't Hoog, Anja, Cobelens, Frank, Reynolds, Steven J.

Source: Journal of acquired immune deficiency syndromes. 90(3):291-299

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100157992623.0x000001&indx=1&recIds=ETOCvdc_100157992623.0x000001

HIV and Viremia Prevalence in Nonmigrating Members of Migrant Households in Southern Uganda: A Cross-Sectional Population-Based Study.

Authors: Young, Ruth, Ssekasanvu, Joseph, Kagaayi, Joseph, Ssekubugu, Robert, Kigozi, Godfrey, Reynolds, Steven J., Nonyane, Bareng A. S., Chang, Larry W., Kennedy, Caitlin E., Paina, Ligia, Anglewicz, Philip A., Quinn, Thomas C., Serwadda, David, Nalugoda, Fred, Grabowski, M. K.

Source: JAIDS: Journal of Acquired Immune Deficiency Syndromes; Feb2025, Vol. 98 Issue 2, p150-160, 11p

PrEP acceptability and initiation among women engaged in sex work in Uganda: Implications for HIV prevention

Authors: Witte, Susan S., Filippone, Prema, Ssewamala, Fred M., Nabunya, Proscovia, Bahar, Ozge Sensoy, Mayo-Wilson, Larissa Jennings, Namuwonge, Flavia, Damulira, Christopher, Tozan, Yesim, Kiyingi, Joshua, Nabayinda, Josephine, Mwebembezi, Abel, Kagaayi, Joseph, McKay, Mary

Source: In eClinicalMedicine February 2022 44

HIV combination prevention and declining orphanhood among adolescents, Rakai, Uganda, 2001–18: an observational community cohort study

Authors: Santelli, John S ^*, Chen, Ivy S, Nabukalu, Dorean, Lutalo, Tom, Spindler, Esther J, Chang, Larry W, Grabowski, Mary Kate, Grilo, Stephanie A, Kreniske, Philip, Wei, Ying, Nalugoda, Fred, Hoffman, Susie, Maru, Mahlet, Chu, Sofia, Ssewamala, Fred M, Byansi, William, Kagaayi, Joseph, Wawer, Maria J, Gray, Ronald H, Serwadda, David, Makumbi, Fred

Source: In The Lancet HIV January 2022 9(1):e32-e41

Costing of HIV services, Uganda and United Republic of Tanzania.

Alternate Title: Costes de los servicios por VIH en Uganda y en la República Unida de Tanzania.
Coût des services de prise en charge du VIH en Ouganda et en République-Unie de Tanzanie.
Расчет стоимости услуг по борьбе с ВИЧ в Объединенной Республике Танзании и Уганде.

Authors: McBain, Ryan K.¹, rmcbain@bwh.harvard.edu, Jordan, Monica², Kapologwe, Ntuli A.³, Kagaayi, Joseph⁴, Kiracho, Elizabeth E.⁴, Nandakumar, Allyala K.²

Source: Bulletin of the World Health Organization; Oct2023, Vol. 101 Issue 10, p626-636, 11p

Construct validity and internal consistency of the Patient Health Questionnaire-9 (PHQ-9) depression screening measure translated into two Ugandan languages

Authors: Miller, Amanda P., Espinosa da Silva, Cristina, Ziegel, Leo, Mugamba, Stephen, Kyasanku, Emma, Bulamba, Robert M., Wagman, Jennifer A., Ekström, Anna Mia, Nalugoda, Fred, Kigozi, Grace, Nakigozi, Gertrude, Kagaayi, Joseph, Watya, Stephen, Kigozi, Godfrey

Source: In Psychiatry Research Communications December 2021 1(2)