Publications

 

graphs of Amplicon length & reads

 

Sensitive and modular amplicon sequencing of Plasmodium falciparum diversity and resistance for research and public health

Andrés Aranda-Díaz, Eric Neubauer Vickers, Kathryn Murie, Brian Palmer, Nicholas Hathaway, Inna Gerlovina, Simone Boene, Manuel Garcia-Ulloa, Pau Cisteró, Thomas Katairo, Francis Ddumba Semakuba, Bienvenu Nsengimaana, Hazel Gwarinda, Carla García-Fernández, Clemente Da Silva, Debayan Datta, Shahiid Kiyaga, Innocent Wiringilimaana, Sindew Mekasha Fekele, Jonathan B. Parr, Melissa Conrad, Jaishree Raman, Stephen Tukwasibwe, Isaac Ssewanyana, Eduard Rovira-Vallbona, Cristina M. Tato, Jessica Briggs, Alfredo Mayor, Bryan Greenhouse

Preprint Aug 22, 2024

https://doi.org/10.1101/2024.08.22.609145

DOI:

10.1101/2024.08.22.609145

 

Github

github.com/EPPIcenter/mad4hatter

 

 

 

Principal component analysis (PCA) of samples clustered together with samples from Central and West Africa

 

Genetic surveillance reveals low, sustained malaria transmission with clonal replacement in Sao Tome and Principe

Ying-An Chen, Peng-Yin Ng,  Daniel Garcia, Aaron Elliot, Brian Palmer, Ronalg Mendes Costa d’ Assunção Carvalho, Lien-Fen Tseng, Cheng-Sheng Lee, Kun-Hsien Tsai, Bryan Greenhouse, Hsiao-Han Chang

Preprint (15 July 2024) 

doi: https://doi.org/10.1101/2024.07.15.24309968

DOI:

10.1101/2024.07.15.24309968

 

 

graphical output of software, illustrating between host relatedness

 

Genomic epidemiology demonstrates spatially clustered, local transmission of Plasmodium falciparum in forest-going populations in southern Lao PDR

Ying-An Chen, Eric Neubauer Vickers, Andres Aranda-Diaz, Maxwell Murphy, Inna Gerlovina, Francois Rerolle, Emily Dantzer, Bouasy Hongvanthong, Hsiao-Han Chang, Andrew A. Lover, Nicholas J. Hathaway, Adam Bennett, Bryan Greenhouse 

PLOS Pathogen (23 Sept 2024) 

 https://doi.org/10.1101/2024.07.15.24310466

DOI:

10.1101/2024.07.15.24310466

 

 

Graph os sequencing performance

 

Genomic malaria surveillance of antenatal care users detects reduced transmission following elimination interventions in Mozambique

Nanna Brokhattingen, Glória Matambisso, Clemente da Silva, Eric Neubauer Vickers, Arnau Pujol, Henriques Mbeve, Pau Cisteró, Sónia Maculuve, Boaventura Cuna, Cardoso Melembe, Nelo Ndimande, Brian Palmer, Manuel García-Ulloa, Humberto Munguambe, Júlia Montaña-Lopez, Lidia Nhamussua, Wilson Simone, Arlindo Chidimatembue, Beatriz Galatas, Caterina Guinovart, Eduard Rovira-Vallbona, Francisco Saúte, Pedro Aide, Andrés Aranda-Díaz, Bryan Greenhouse, Eusébio Macete & Alfredo Mayor 
Nature Communications volume 15, Article number: 2402 (16 March 2024) 

https://www.nature.com/articles/s41467-024-46535-x

 

DOI:

10.1038/s41467-024-46535-x

 

 

moire logo

 

MOIRE: A software package for the estimation of allele frequencies and effective multiplicity of infection from polyallelic data

Maxwell Murphy, Bryan Greenhouse Bioinformatics, Volume 40, Issue 10, October 2024

https://doi.org/10.1093/bioinformatics/btae619

 

DOI:

10.1093/bioinformatics/btae619

on github

https://eppicenter.github.io/moire

 

 

Dengue infection cohort infection & hospitalization over time graph

 

Household immunity and individual risk of infection with dengue virus in a prospective, longitudinal cohort study

Marco Hamins-Puértolas, Darunee Buddhari, Henrik Salje, Derek A. T. Cummings, Stefan Fernandez, Aaron Farmer, Surachai Kaewhiran, Direk Khampaen, Sopon Iamsirithaworn, Anon Srikiatkhachorn, Adam Waickman, Stephen J. Thomas, Alan L. Rothman, Timothy Endy, Isabel Rodriguez-Barraquer & Kathryn B. Anderson; Nature Microbiology (Dec 2023)

https://doi.org/10.1101/2023.02.24.23286422

 https://www.medrxiv.org/content/10.1101/2023.02.24.23286422v1.full

 

 

 

DOI:

10.1101/2023.02.24.23286422

Download file

 

 

Map of source of samples

 

Targeted and whole-genome sequencing reveal a north-south divide in P. falciparum drug resistance markers and genetic structure in Mozambique

Clemente da Silva, Simone Boene, Debayan Datta, Eduard Rovira-Vallbona, Andrés Aranda-Díaz, Pau Cisteró, Nicholas Hathaway, Sofonias Tessema, Arlindo Chidimatembue, Glória Matambisso, Abel Nhama, Eusebio Macete, Arnau Pujol, Lidia Nhamussua, Beatriz Galatas, Caterina Guinovart, Sónia Enosse, Eva De Carvalho, Eric Rogier, Mateusz M. Plucinski, James Colborn, Rose Zulliger, Abuchahama Saifodine, Pedro L. Alonso, Baltazar Candrinho, Bryan Greenhouse, Pedro Aide, Francisco Saute & Alfredo Mayor   Nature communications biology June 8, 2023.

https://doi.org/10.1038/s42003-023-04997-7 

 

 

 

DOI:

10.1038/s42003-023-04997-7

 

 

 

Spatial distributions of predictor variables at the parish level

 

Mapping malaria incidence using routine health facility surveillance data in Uganda

Adrienne Epstein, Jane Namuganga, Isaiah Nabende, Emmanuel Kamya, Moses Kamya, Grant Dorsey, Hugh Sturrock, Samir Bhatt, Isabel Rodríguez-Barraquer, Bryan Greenhouse.  BMJ Global Health  May 19, 2023.

https://doi.org/10.1136/bmjgh-2022-011137

 

 

 

 

DOI:

10.1136/bmjgh-2022-011137

 

 

 

 

graphs of virus detected over time

 

Metagenomic next-generation sequencing to characterize etiologies of non-malarial fever in a cohort living in a high malaria burden area of Uganda

Lusajo Mwakibete, Saki Takahashi, Vida Ahyong, Allison Black, John Rek, Isaac Ssewanyana, Moses Kamya, Grant Dorsey, Prasanna Jagannathan, Isabel Rodríguez-Barraquer, Cristina M. Tato, Bryan Greenhouse  PLOS GPH, May 3, 2023.

https://doi.org/10.1371/journal.pgph.0001675

 

 

DOI: ​​​​​

https://doi.org/10.1371/journal.pgph.0001675

 

 

Summary of cohort data.

Identifying the role of household immunity in driving individual dengue virus infection risk


Marco Hamins-Puértolas, Darunee Buddhari, Henrik Salje, Derek A.T. Cummings, Stefan Fernandez, Aaron Farmer, Surachai Kaewhiran, Direk Khampaen, Sopon Iamsirithaworn, Stephen J. Thomas, Timothy Endy, Anon Srikiatkhachorn, Alan L. Rothman, Isabel Rodriguez-Barraquer, Kathryn B. Anderson Medrxiv preprint https://doi.org/10.1101/2023.02.24.23286422

 

DOI: ​​​​​

10.1101/2023.02.24.23286422

 

 

Schematic of Network of PfEMP1 sharing inter-protein motifs with other seroreactive proteins

Antibodies to repeat-containing antigens in Plasmodium falciparum are exposure-dependent and short-lived in children in natural malaria infections

Madhura Raghavan, Katrina Kalantar, Elias Duarte, Noam Teyssier, Saki Takahashi, Andrew Kung, Jayant Rajan, John Rek, Kevin Tetteh, Chris Drakeley, Isaac Ssewanyana, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Joseph DeRisi  ELife Feb 15, 2023. https://doi.org/10.7554/eLife.81401

 

DOI: ​​​​​

10.7272/Q69S1P9G

 

 

SARS-CoV-2 Epidemic in Uganda and in the Program for Resistance, Immunology, Surveillance, and Modeling of Malaria (PRISM) Border Cohort Study

Seroprevalence of Antibodies to SARS-CoV-2 in Rural Households in Eastern Uganda, 2020-2022

Jessica Briggs, Saki Takahashi, Patience Nayebare, Gloria Cuu, John Rek, Maato Zedi, Timothy Kizza, Emmanuel Arinaitwe, Joaniter Nankabirwa, Moses Kamya, Prasanna Jagannathan, Karen Jacobson, Philip J. Rosenthal, Grant Dorsey, Bryan Greenhouse, Isaac Ssewanyana, and Isabel Rodríguez-Barraquer.  JAMA Netw Open. 2023 Feb; 6(2): e2255978. https://doi.org/10.1001/jamanetworkopen.2022.55978

 

DOI: ​​​​​

10.1001/jamanetworkopen.2022.55978

 

uncertainty (Shannon entropy) of ensemble model forecast

Evaluation of an open forecasting challenge to assess skill of West Nile virus neuroinvasive disease prediction

Karen Holcomb, Sarabeth Mathis, J Erin Staples, Marc Fischer, Chris Barker, Charles Beard, Randall Nett, Alexander Keyel, Matteo Marcantonio, Marissa Childs, Morgan Gorris, Ilia Rochlin, Marco Hamins-Puértolas, Evan Ray, Johnny Uelmen, Nicholas DeFelice, Andrew Freedman, Brandon Hollingsworth, Praachi Das, Dave Osthus, John Humphreys, Nicole Nova, Erin Mordecai, Lee Cohnstaedt, Devin Kirk, Laura Kramer, Mallory Harris, Morgan Kain, Emily Reed, Michael Johansson Parasit Vectors https://doi.org10.1186/s13071-022-05630-y

 

DOI: ​​​​​

doi.org10.1186/s13071-022-05630-y

 

 

painting of looking glass and DNA overa mosquito

Dcifer: an IBD-based method to calculate genetic distance between polyclonal infections

Inna Gerlovina, Boris Gerlovin, Isabel Rodríguez-Barraquer, Bryan Greenhouse.  Genetics Aug 24, 2022   https://doi.org/10.1093/genetics/iyac126

 

DOI: ​​​​​

10.1093/genetics/iyac126

Git Hub Dcifer

 

Prior vaccination in Index case

Infectiousness of SARS-CoV-2 breakthrough infections and reinfections during the Omicron wave

Sophia Tan, Ada Kwan, Isabel Rodríguez-Barraquer, Benjamin Singer, Hailey Park, Joseph Lewnard, David Sears, Nathan Lo.   preprint MedRXiv Aug 9 2022. doi: https://doi.org/10.1101/2022.08.08.22278547

 

DOI: ​​​​​

10.1101/2022.08.08.22278547 

 

phage representations

Proteome-wide antigenic profiling in Ugandan cohorts identifies associations between age, exposure intensity, and responses to repeat-containing antigens in Plasmodium falciparum

Madhura Raghavan, Katrina Kalantar,& Elias Duarte, Noam Teyssier, Saki Takahashi, Andrew F. Kung, Jayant Rajan, John Rek, Kevin Tetteh, Chris Drakeley, Isaac Ssewanyana, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Joseph DeRisi. June 26, 2022 preprint BioRx https://doi.org/10.1101/2022.06.24.497532

 

DOI: ​​​​​

10.1101/2022.06.24.497532

 

map of San Francisco showing infection and vaccination rates by zip code

Using sero-epidemiology to monitor disparities in vaccination and infection with SARS-CoV-2

Isobel Routledge, Saki Takahashi, Adrienne Epstein, Jill Hakim, Owen Janson, Keirstinne Turcios, Jo Vinden, John Tomas Risos, Margaret Rose Baniqued, Lori Pham, Clara Di Germanio, Michael Busch, Margot Kushel, Bryan Greenhouse, Isabel Rodríguez-Barraquer Nat Commun. 2022 May 4;13(1):2451 https://doi.org/10.1038/s41467-022-30051-x

 

DOI: ​​​​​

10.1038/s41467-022-30051-x

GitHub Scale-It

 

Graphic abstract of study

TNF-α+ CD4+ T cells dominate the SARS-CoV-2 specific T cell response in COVID-19 outpatients and are associated with durable antibodies

Kattria van der Ploeg, Adam Kirosingh, Diego Mori, Saborni Chakraborty, Zicheng Hu, Benjamin Sievers, Karen Jacobson, Hector Bonilla, Julie Parsonnet, Jason Andrews, Kathleen Press, Maureen Ty, Daniel Ruiz-Betancourt, Lauren de la Parte, Gene Tan, Catherine Blish, Saki Takahashi, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Upinder Singh, Taia Wang, Prasanna Jagannathan. May 02, 2022  Cell Reports  https://doi.org/10.1016/j.xcrm.2022.100640

 

DOI: ​​​​​

10.1016/j.xcrm.2022.100640

 

Months since IRS was initiated

Resurgence of malaria in Uganda despite sustained indoor residual spraying and repeated long lasting insecticidal net distributions

Adrienne Epstein, Catherine Maiteki-Ssebuguzi, Jane Namuganga, Joaniter Nankabirwa, Samuel Gonahasa, Jimmy Opigo, Sarah Staedke, Damian Rutazaana, Emmanuel Arinaitwe, Moses Kamya, Samir Bhatt, Isabel Rodríguez-Barraquer, Bryan Greenhouse, Martin Donnelly, Grant Dorsey Preprint in medRxiv  Feb 18 2022 doi:https://doi.org/10.1101/2022.02.18.22271193

 

DOI: ​​​​​

10.1101/2022.02.18.22271193

 

estimating averted cases due to vaccination by age

Estimation of COVID-19 cases prevented by vaccination in California

Sophia Tan, Hailey Park, Isabel Rodríguez-Barraquer, George W. Rutherford, Kirsten Bibbins-Domingo, Robert Schechter, Nathan C. Lo JAMA Netw Open.  2022;5(4): e228526. doi:10.1001/jamanetworkopen.2022.8526

PDF

DOI: ​​​​​

10.1001/jamanetworkopen.2022.8526

 

pLDH concentration in the blood vs parasite density from qPCR

A Novel Malaria Lateral Flow Assay for Detecting Plasmodium falciparum Lactose Dehydrogenase in Busia, Uganda

Christine M Bachman, David M Cate, Ben Grant, Stephen Burkot, Jerry Mulondo, Helen V Hsieh, Martin Chamai, Bakar Odongo, Peter Olwoch, Mayimuna Nalubega, Harriet Ochokoru, Joseph Kasozi, John Ategeka, Kevin P Nichols, Bernhard H Weigl, Bryan Greenhouse.  American Journal of Tropical Medicine and Hygiene Jan 17, 2022

Download PDF

DOI: 

10.4269/ajtmh.21-0956

 

 

graph of gametocyte density

Sources of persistent malaria transmission in a setting with effective malaria control in eastern Uganda: a longitudinal, observational cohort study

Chiara Andolina, John C Rek, Jessica Briggs, Joseph Okoth, Alex Musiime, Jordache Ramjith, Noam Teyssier, Melissa Conrad, Joaniter INankabirwa, Kjerstin Lanke, Isabel Rodriguez-Barraquer, Lisette Meerstein-Kessel, Emmanuel Arinaitwe, Peter Olwoch, Philip J Rosenthal, Moses Kamya, Grant Dorsey, Bryan Greenhouse, Chris Drakeley, Sarah Staedke, Teun Bousema. Lancet Infectious Disease Nov 2021

PDF

DOI: ​​​​​

10.1016/S1473-3099(21)00072-4

 

adjusted seroprevalence by survey maps of italy, US and Spain

SARS-CoV-2 serology across scales: a framework for unbiased seroprevalence estimation incorporating antibody kinetics and epidemic recency

Saki Takahashi, Michael J. Peluso, Jill Hakim, Keirstinne Turcios, Owen Janson, Isobel Routledge, Michael P. Busch, Rebecca Hoh, Viva Tai, J. Daniel Kelly, Jeffrey N. Martin, Steven G. Deeks, Timothy J. Henrich, Bryan Greenhouse, Isabel Rodríguez-Barraquer. MedXiv Sept 14, 2021

 PDF

DOI: 

10.1101/2021.09.09.21263139

 

Spearman correlation of random intercepts derived from a mixed-effects model,

SARS-CoV-2 antibody magnitude and detectability are driven by disease severity, timing, and assay

Michael Peluso, Saki Takahashi, Jill Hakim, J. Daniel Kelly, Leonel Torres, Nikita Iyer, Keirstinne Turcios, Owen Janson, Sadie Munter, Cassandra Thanh, Christopher Nixon, Rebecca Hoh, Viva Tai, Emily Fehrman, Yanel Hernandez, Matthew Spinelli, Monica Gandhi, Mary-Ann Palafox, Ana Vallari, Mary Rodgers, John Prostko, John Hackett Jr., Lan Trinh, Terri Wrin, Christos Petropoulos, Charles Chiu, Philip Norris, Clara DiGermanio, Mars Stone, Michael Busch, Susanna Elledge, Xin X. Zhou, James Wells, Albert Shu, Theodore Kurtz, John Pak, Wesley Wu, Peter Burbelo, Jeffrey Cohen, Rachel Rutishauser, Jeffrey Martin, Steven Deeks, Timothy Henrich, Isabel Rodriguez-Barraquer, Bryan Greenhouse. Science Advances July 30, 2021

 PDF

DOI: ​​​​​

10.1101/2021.03.03.21251639

GitHub liinc-Ab-dynamics

 

 

EPPIcenter logo

SARS-CoV-2 PCR and antibody testing for an entire rural community: methods and feasibility of high-throughput testing procedures

Ayesha Appa, Gabriel Chamie, Aenor Sawyer, Kimberly Baltzell, Kathryn Dippel, Salu Ribeiro, Elias Duarte, Joanna Vinden, Cliahub Consortium, Jonathan Kramer-Feldman, Shahryar Rahdari, Doug MacIntosh, Katherine Nicholson, Jonathan Im, Diane Havlir, Bryan Greenhouse: Archives of Public Health volume 2021 July 7 Article 125 

PDF

​​​DOI: 

10.1186/s13690-021-00647-8

 

Map of the study area

Effectiveness and safety of reactive focal mass drug administration (rfMDA) using dihydroartemisinin-piperaquine to reduce malaria transmission in very low-endemic setting of Eswatini: a pragmatic cluster randomised controlled trial

Sibonakaliso Vilakati, Nontokozo Mngadi, Jade Benjamin-Chung, Nomcebo Dlamini, Mi-Suk Kang Dufour, Brooke Whittemore, Khayelihle Bhangu, Lisa M. Prach, Kimberly Baltzell, Nomcebo Nhlabathi, Calisile Malambe, Bongani Dlamini, Danica Helb, Bryan Greenhouse, Gugu Maphalala, Deepa Pindolia, Muhindo Kalungero, Getahun Tesfa, Roly Gosling, Nyasatu Ntshalintshali, Simon Kunene, Michelle Hsiang.BMJ Global Health 2021;6:e005021. June 30, 2021

PDF

DOI: ​​​​​

10.1136/bmjgh-2021-005021

 

maps showing seroprevelence

Citywide serosurveillance of the initial SARS-CoV-2 outbreak in San Francisco

Isobel Routledge, Adrienne Epstein, Saki Takahashi, Jill Hakim, Own Janson, Elias Duarte, Keirstinne Turcios, Joanna Vinden, Kirk Sujishi, Jesus Rangel, Marcelina Coh, Lee Besana, Wai-Kit Ho, Ching-Ying Oon, Chui Mei Ong, Cassandra Yun, Kara Lynch, Alan Wu, Wesley Wu, William Karlon, Edward Thornborrow, Michael Peluso, Timothy Henrich, John Pak, Jessica Briggs, Bryan Greenhouse, Isabel Rodriguez-Barraquer. Nature Communications 12, Article number: 3566 (2021) June 11, 2021

PDF

 

​​​​​DOI: ​​​​​

10.1038/s41467-021-23651-6

GitHub ScaleIT FlexFit

 

Predicted number of SARS-CoV-2 infections

Comparison of infection control strategies to reduce COVID-19 outbreaks in homeless shelters in the United States: a simulation study

Lloyd A.C. Chapman, Margot Kushel, Sarah N. Cox, Ashley Scarborough, Caroline Cawley, Trang Nguyen, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Elizabeth Imbert, Nathan C. Lo. BMC Med. 2021 May 7;19(1):116.

PDF

DOI: ​​​​​

10.1186/s12916-021-01965-y

 

graphic illustration of sample pipeline

multiSero: open multiplex-ELISA platform for analyzing antibody responses to SARS-CoV-2 infection

Janie Byrum, Eric Waltari, Owen Janson, Syuan-Ming Guo, Jenny Folkesson, Bryant Chhun, Joanna Vinden, Ivan Ivanov, Marcus Forst, Hongquan Li, Adam Larson, Wesley Wu, Cristina Tato, Krista McCutcheon, Michael Peluso, Timothy Henrich, Steven Deeks, Manu Prakash, Bryan Greenhouse, John Pak, Shalin Mehta MedRXiv May 11 2021
doi: https://doi.org/10.1101/2021.05.07.21249238

PDF (19M)

DOI: ​​​​​

10.1101/2021.05.07.21249238

 

Schematic of the solution-based serology assay.

Engineering luminescent biosensors for point-of-care SARS-CoV-2 antibody detection

Susanna K. Elledge, Xin X. Zhou, James R. Byrnes, Alexander J. Martinko, Irene Lui, Katarina Pance, Shion A. Lim, Jeff E. Glasgow, Anum A. Glasgow, Keirstinne Turcios, Nikita S. Iyer, Leonel Torres, Michael J. Peluso, Timothy J. Henrich, Taia T. Wang, Cristina M. Tato, Kevin K. Leung, Bryan Greenhouse & James A. Wells. Nature Biotech March 25, 2021

PDF

DOI: ​​​​​

10.1101/2020.08.17.20176925

 

Ratio of false positive to true positive test results for test-and-travel strategies

Routine asymptomatic testing strategies for airline travel during the COVID-19 pandemic: a simulation analysis

Mathew Kiang, Elizabeth Chin, Benjamin Huynh, Lloyd Chapman, Isabel Rodriguez-Barraquer, Bryan& Greenhouse, George Rutherford, Kirsten Bibbins-Domingo, Diane Havlir, Sanjay Basu, Nathan Lo. Lancet, March 22, 2021

PDF

DOI:

10.1101/2020.12.08.20246132

 

Cumulative incidence of confirmed COVID-19 cases (left column) and deaths (right column) in California up to December 30, 2020,

Risk factor targeting for vaccine prioritization during the COVID-19 pandemic

Lloyd A C Chapman, Poojan Shukla, Isabel Rodríguez-Barraquer, Priya B. Shete, Tomás M. León, Kirsten Bibbins-Domingo, George W Rutherford, Robert Schechter,Nathan C Lo. Nature Scientific Reports 12, Article number: 3055. 2022 Feb 23.

PDF

DOI: ​​​​​

10.1101/2021.03.04.21251264

 

eppi logo

Validation of Pooled SARS-CoV-2 Testing in the Outbreak Setting

Jessica Briggs. Am J Trop Med Hyg. 2021 March 8 ;99(5):1120-1127.

PDF

DOI: ​​​​​

10.4269/ajtmh.21-0202

 

Maximum a posteriori transmission networks in Eswatini

Inferring person-to-person networks of Plasmodium falciparum transmission: are analyses of routine surveillance data up to the task?

John Huber, Michelle Hsiang, Nomcebo Dlamini, Maxwell Murphy, Sibonakaliso Vilakati, Nomcebo Nhlabathi, Anita Lerch, Rasmus Nielsen, Nyasatu Ntshalintshali, Bryan Greenhouse, T. Alex Perkins. Malaria Journal volume 21, Article number: 58 (2022) Feb 21

DOI: ​​​​​

https://doi.org/10.1186/s12936-022-04072-2

 

 

Comparisons of genome coverage and dropout rate

Optimization of whole-genome sequencing of Plasmodium falciparum from low-density dried blood spot samples

Noam Teyssier, Anna Chen, Elias Duarte, Rene Sit, Bryan Greenhouse & Sofonias Tessema. Malaria Journal 2021 Feb 26; 20(1):116.

PDF

DOI: ​​​​​

10.1186/s12936-021-03630-4

 

catterplot of DAPC in genetic clusters of P. falciparum

Parasite genetic diversity reflects continued residual malaria transmission in Vhembe District, a hotspot in the Limpopo Province of South Africa

Hazel Gwarinda, Sofonias Tessema, Jaishree Raman, Bryan Greenhouse, Lyn-Marié Birkholtz. Malar J. 2021 Feb 16;20(1):96

PDF

​​​​​DOI: ​​​​​

10.1186/s12936-021-03635-z

 

 

individual malaria status over 160 study sampling time points

Impact of a Rapid Decline in Malaria Transmission on Antimalarial IgG Subclasses and Avidity

Isaac Ssewanyana, John Rek, Isabel Rodriguez-Barraquer, Lindsey Wu, Emmanuel Arinaitwe, Joaniter Nankabirwa, James Beeson, Harriet Mayanja-Kizza, Philip J. Rosenthal, Grant Dorsey, Moses Kamya, Chris Drakeley, Bryan Greenhouse, Kevin Tetteh. Frontiers in Immunology. 2021 Jan 27;11:576663

 

PDF

​​​​​DOI: ​​​​​

10.3389/fimmu.2020.576663

 

map of malaria reference centers

Relationships between test positivity rate, total laboratory confirmed cases of malaria, and malaria incidence in high burden settings of Uganda: an ecological analysis

Jaffer Okiring, Adrienne Epstein, Jane Namuganga, Victor Kamya, Asadu Sserwanga, James Kapisi, Chris Ebong, Simon P. Kigozi, Arthur Mpimbaza, Humphrey Wanzira, Jessica Briggs, Moses Kamya, Joaniter, Nankabirwa & Grant Dorsey. Malar J. 2021 Jan 13;20(1):42

PDF

​​​​​DOI: ​​​​​

10.1186/s12936-021-03584-7​​​​​​

 

Bolinas testing site

Universal PCR and antibody testing demonstrate little to no transmission of SARS-CoV-2 in a rural community

Ayesha Appa, Saki Takahashi, Isabel Rodriguez-Barraquer, Gabriel Chamie, Aenor Sawyer, Elias Duarte, Jill Hakim, Keirstinne Turcios, Joanna Vinden, Owen Janson, Aashish Manglik, Michael J Peluso, Steven Deeks, Timothy J Henrich, Leonel Torres, Mary Rodgers, John Hackett, Charles Chiu, Diane Havlir, Bryan Greenhouse: Open Forum Infectious Diseases, Volume 8, Issue 1, January 2021, ofaa531,

PDF 

DOI:

10.1093/ofid/ofaa531

GitHub bolinas-analysis

 

Adjusted IRR and predicted case counts from multilevel negative binomial model 153

The impact of stopping and starting indoor residual spraying on malaria burden in 14 districts of Uganda

Jane Frances Namuganga, Adrienne Epstein, Joaniter Nankabirwa, Arthur Mpimbaza, Moses Kiggundu, Asadu Sserwanga, James Kapisi, Emmanuel Arinaitwe, Samuel Gonahasa, Jimmy Opigo, Sarah Staedke, Josephat Shililu, Michael Okia, Damian Amanya Rutazaana, Catherine Maiteki-Ssebuguzi, Kassahun Belay, Moses Kamya, Grant Dorsey, Isabel Rodriguez Barraquer; Nat Commun 12, 2635 (2021)

PDF

DOI: ​​​​​

10.21203/rs.3.rs-126095/v1

 

travel time to the health facility and probability of attending

Estimating malaria incidence from routine health facility-based surveillance data in Uganda

Adrienne Epstein, Jane Frances Namuganga, Emmanuel Victor Kamya, Joaniter I. Nankabirwa, Samir Bhatt, Isabel Rodriguez-Barraquer, Sarah G. Staedke, Moses R. Kamya, Grant Dorsey & Bryan Greenhouse . Malaria Journal 2020 Dec 2; volume 19: 445 

PDF

DOI:

10.1186/s12936-020-03514-z

 

Genetic complexity and diversity of infections

Spatial and genetic clustering of Plasmodium falciparum and Plasmodium vivax infections in a low-transmission area of Ethiopia

Sofonias Tessema, Mulualem Belachew, Cristian Koepfli, Kjerstin Lanke, Tiffany Huwe, Wakweya Chali, Girma Shumie, Elias Mekuria, Chris Drakeley, Endalamaw Gadisa, Bryan Greenhouse, Teun Bousema, Fitsum Tadesse. Sci Rep. 2020 Nov 17;10(1):19975

PDF

DOI:

10.1038/s41598-020-77031-z

 

Timeline of influenza, varicella, and mumps cases were identified among migrants in 17 centers

Influenza, Varicella, and Mumps Outbreaks in US Migrant Detention Centers

Nathan Lo, Sindiso Nyathi, Lloyd Chapman, Isabel Rodriguez-Barraquer, Margot Kushel, Kirsten Bibbins-Domingo, Joseph Lewnard. JAMA. 2020 Oct 29; e2020539.

​ PDF

DOI: 

10.1001/jama.2020.20539

 

estimated duration of infection

Sex-based differences in clearance of chronic Plasmodium falciparum infection

Jessica Briggs, Noam Teyssier, Joaniter Nankabirwa, John Rek, Prasanna Jagannathan, Emmanuel Arinaitwe, Teun Bousema, Chris Drakeley, Margaret Murray, Emily Crawford, Nicholas Hathaway, Sarah Staedke, David Smith, Phillip J Rosenthal, Moses Kamya, Grant Dorsey, Isabel Rodriguez-Barraquer, Bryan Greenhouse. Elife. 2020 Oct 27;9:e59872.

​ PDF

DOI: 

10.7554/eLife.59872

GitHub Sex_based

 

Projected impact of routine PCR testing frequency on the mean effective reproduction number under different testing scenarios

Frequency of Routine Testing for Coronavirus Disease
2019 (COVID-19) in High-risk Healthcare Environments
to Reduce Outbreaks

Elizabeth T Chin, Benjamin Huynh, Lloyd Chapman, Matthew Murrill, Sanjay Basu, Nathan Lo. Clinical Infectious Diseases, ciaa1383. 2020 Oct 26

PDF

DOI: 

10.1093/cid/ciaa1383

 

Location of enrolled households in Piedecuesta, Colombia

Heterogeneity of dengue transmission in an endemic area of Colombia

María Isabel Estupiñán Cárdenas, Víctor Mauricio Herrera, María Consuelo Miranda Montoya, Anyela Lozano Parra, Zuly Milena Zaraza Moncayo, Janeth Patricia Flórez García, Isabel Rodríguez Barraquer, Luis Ángel Villar Centeno PLoS Negl Trop Dis. 2020 Sep 14; 14(9):e0008122

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DOI: 

10.1371/journal.pntd.0008122

 

 

Results of the model fit, graph

Evaluating the performance of malaria genetics for inferring changes in transmission intensity using transmission modelling

Oliver Watson, Lucy Okell, Joel Hellewell, Hannah Slater, H Juliette Unwin, Irene Omedo, Philip Bejon, Robert Snow, Abdisalan Noor, Kirk Rockett, Christina Hubbart, Joaniter Nankabirwa, Bryan Greenhouse, Hsiao-Han Chang, Azra Ghani, Robert Verity: Mol Biol Evol 2020 Sep 8; msaa225

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DOI: 

10.1093/molbev/msaa225

 

Time Since In infection graphs

Are SARS-CoV-2 seroprevalence estimates biased?

Saki Takahashi, Bryan Greenhouse, Isabel Rodríguez-Barraquer:  J Infect Dis. 2020 Aug 28

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DOI: 

10.1093/infdis/jiaa523

 

Coverage of multiplexing assay on selected microhaplotypes

Sensitive, highly multiplexed sequencing of microhaplotypes from the Plasmodium falciparum heterozygome

Sofonias Tessema, Nicholas Hathaway, Noam Teyssier, Maxwell Murphy, Anna Chen, Ozkan Aydemirz, Elias Duarte, Wilson Simone, James Colborn, Francisco Saute, Emily Crawford, Pedro Aide, Jeffrey Bailey, Bryan Greenhouse: J Infect Dis. 2020 Aug 25;jiaa527

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DOI: 

10.1093/infdis/jiaa527

 

Origins of imported malaria

Confirmation of the absence of local transmission and geographic assignment of imported falciparum malaria cases to China using microsatellite panel
​​​

Yaobao Liu, Sofonias K. Tessema, Maxwell Murphy, Sui Xu, Alanna Schwartz, Weiming Wang, Yuanyuan Cao, Feng Lu, Jianxia Tang, Yaping Gu, Guoding Zhu, Huayun Zhou, Qi Gao, Rui Huang, Jun Cao & Bryan Greenhouse:  Malaria Journal. 2020 Jul 13;19(1):244.

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DOI:

10.1186/s12936-020-03316-3

 

age-specific burden of malaria

Rapid shifts in the age-specific burden of malaria following successful control interventions in four regions of Uganda

Simon Kigozi, Ruth Kigozi, Adrienne Epstein, Arthur Mpimbaza, Asadu Sserwanga, Adoke Yeka, Joaniter Nankabirwa, Katherine Halliday, Rachel Pullan, Damian Rutazaana, Catherine Sebuguzi, Jimmy Opigo, Moses Kamya, Sarah Staedke, Grant Dorsey, Bryan Greenhouse & Isabel Rodriguez-Barraquer. Malaria Journal. 2020 Mar 30;19(1):128

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DOI: 

10.1186/s12936-020-03196-7

 

Geographic variation in the predicted impact of a transmission-reduction intervention.

Mapping global variation in dengue transmission intensity

Lorenzo Cattarino, Isabel Rodriguez-Barraquer, Natsuko Imai, Derek Cummings, Neil Ferguson.Sci Transl Med. 2020 Jan 29;12(528):eaax4144

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DOI: 

10.1126/scitranslmed.aax4144

 

Flow diagram of participants included in the analyses

Associations between red blood cell variants and malaria among children and adults from three areas of Uganda: a prospective cohort study

Elijah Kakande, Bryan Greenhouse, Francis Bajunirwe, Chris Drakeley, Joaniter I. Nankabirwa, Andrew Walakira, Samuel L. Nsobya, Agaba Katureebe, John Rek, Emmanuel Arinaitwe, Philip J. Rosenthal, Moses R. Kamya, Grant Dorsey & Isabel Rodriguez-Barraquer. Malaria Journal
. 2020 Jan 15;19(1):21.

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DOI:

10.1186/s12936-020-3105-3

​

 

Weekly overall incidence rate

The Impact of Multiple Rounds of Indoor Residual Spraying on Malaria Incidence and Hemoglobin Levels in a High-Transmission Setting

Kate Zinszer, Katia Charland, Sarah Vahey, Deepa Jahagirdar, John Rek, Emmanuel Arinaitwe, Joaniter Nankabirwa, Kathryn Morrison, Margaux Sadoine, Marc-Antoine Tutt-Guérette, Sarah Staedke, Moses R Kamya, Bryan Greenhouse, Isabel Rodriguez-Barraquer, Grant Dorsey J Infect Dis. 2020 Jan 2;221(2):304-312

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DOI:

10.1093/infdis/jiz453

 

Graphical abstract

Heterogeneous local dynamics revealed by classification analysis of spatially disaggregated time series data

T Alex Perkins, Isabel Rodriguez-Barraquer, Carrie Manore, Amir Siraj, Guido España, Christopher Barker, Michael Johansson, Robert Reiner Jr.Epidemics. 2019 Dec;29:100357.

 

DOI:

10.1016/j.epidem.2019.100357

 

Cases in Namibia

Active case-finding for malaria: A three-year national evaluation of optimal approaches to detect infections and hotspots through reactive case detection in the low transmission setting of Eswatini

Michelle Hsiang, Nyasatu Ntshalintshali, Mi-Suk Kang Dufour, Nomcebo Dlamini, Nomcebo Nhlabathi, Sibonakaliso Vilakati, Calsile Malambe, Zulisile Zulu, Gugu Maphalala, Joseph Novotny, Maxwell Murphy, Alanna Schwartz, Hugh Sturrock, Roly Gosling, Grant Dorsey, Simon Kunene, Bryan Greenhouse.Clin Infect Dis. 2020 Mar 17;70(7):1316-1325.

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DOI:

10.1093/cid/ciz403

 

2

High Genetic Diversity of Plasmodium falciparum in the Low-Transmission Setting of the Kingdom of Eswatini

Roh ME, Tessema SK, Murphy M, Nhlabathi N, Mkhonta N, Vilakati S, Ntshalintshali N, Saini M, Maphalala G, Chen A, Wilheim J, Prach L, Gosling R, Kunene S, S Hsiang M, Greenhouse B. J Infect Dis. 2019 Sep 13;220(8):1346-1354

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DOI: 10.1093/infdis/jiz305

 

Proportion of women with placental malaria

Impact of Microscopic and Submicroscopic Parasitemia During Pregnancy on Placental Malaria in a High-Transmission Setting in Uganda

Jessica Briggs, John Ategeka, Richard Kajubi, Teddy Ochieng, Abel Kakuru, Cephus Ssemanda, Razack Wasswa, Prasanna Jagannathan, Bryan Greenhouse, Isabel Rodriguez-Barraquer, Moses Kamya, Grant Dorsey. J Infect Dis. 2019 Jul 2;220(3):457-466.

 

DOI: 

10.1093/infdis/jiz130

 

Challenges and key priorities of genomic epidemiology in sub-Saharan Africa

Applying next-generation sequencing to track falciparum malaria in sub-Saharan Africa

Tessema SK, Raman J, Duffy CW, Ishengoma DS, Amambua-Ngwa A, Greenhouse B. Malar J. 2019 Sep 3;18(1):268

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DOI:

10.1186/s12936-019-2880-1
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flash method cartoon

FLASH: a next-generation CRISPR diagnostic for multiplexed detection of antimicrobial resistance sequences

Jenai Quan, Charles Langelier, Alison Kuchta, Joshua Batson, Noam Teyssier, Amy Lyden, Saharai Caldera, Aaron McGeever, Boris Dimitrov, Ryan King, Jordan Wilheim, Maxwell Murphy, Lara Pesce Ares, Katherine Travisano, Rene Sit, Roberto Amato, Davis R Mumbengegwi, Jennifer L Smith, Adam Bennett, Roly Gosling, Peter Mourani, Carolyn Calfee, Norma Neff, Eric Chow, Peter Kim, Bryan Greenhouse, Joseph DeRisi, Emily Crawford. Nucleic Acids Res. 2019 Aug 22;47(14):e83.

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DOI: 

10.1093/nar/gkz418

 

Priority applications of exposure markers

Priority use cases for antibody-detecting assays of recent malaria exposure as tools to achieve and sustain malaria elimination

Greenhouse B, Daily J, Guinovart C, Goncalves B, Beeson J, Bell D, Chang MA, ;Cohen JM, Ding X, Domingo G, Eisele TP, Lammie PJ, Mayor A, Merienne N, Monteiro W, Painter J, Rodriguez I, White M, Drakeley C, Mueller I; Malaria Serology Convening. Gates Open Res. 2019 Feb 12;3:131. 

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DOI: 10.12688/gatesopenres.12897.1

 

estimating FOI

Opportunities for improved surveillance and control of dengue from age-specific case data

Rodriguez-Barraquer I, Salje H, Cummings DA. Elife. 2019 May 23;8. 

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DOI: 10.7554/eLife.45474

 

Local genetic connectivity in northeastern Namibia.

Using parasite genetic and human mobility data to infer local and cross-border malaria connectivity in Southern Africa

Tessema S, Wesolowski A, Chen A, Murphy M, Wilheim J, Mupiri AR, Ruktanonchai NW, Alegana VA, Tatem AJ, Tambo M, Didier B, Cohen JM, Bennett A, Sturrock HJ, Gosling R, Hsiang MS, Smith DL, Mumbengegwi DR, Smith JL, Greenhouse B. Elife. 2019 Apr 2;8.

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DOI: 10.7554/eLife.43510.

 

Dengue Pre vaccination supplement figure

Dengue pre-vaccination screening and positive predictive values

Rodríguez-Barraquer I, Salje H, Cummings DA. Lancet Infect Dis. 2019 Feb;19(2):132-134

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DOI:

10.1016/S1473-3099(18)30799-0

 

ZIKV infection as a function of age and prior DENV exposure

Impact of preexisting dengue immunity on Zika virus emergence in a dengue endemic region

Isabel Rodriguez-Barraquer, Federico Costa, Eduardo Nascimento, Nivison Nery Jr, Priscila Castanha, Gielson Almeida Sacramento, Jaqueline Cruz, Mayara Carvalho, Daiana De Olivera, José Hagan, Haritha Adhikarla, Elsio Wunder Jr, Danilo F. Coêlho, Sasha Azar, Shannan Rossi, Nikos Vasilakis, Scott Weaver, Guilherme Ribeiro, Angel Balmaseda, Eva Harris, Maurício Nogueira, Mitermayer Reis, Ernesto Marques, Derek Cummings, Albert I. Ko. Science. 2019 Feb 8;363(6427):607-610.

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DOI: 10.1126/science.aav6618

 

Map of study area overlaid with observed vs expected counts

Genetic Evidence of Focal Plasmodium falciparum Transmission in a Pre-elimination Setting in Southern Province, Zambia

Pringle JC, Tessema S, Wesolowski A, Chen A, Murphy M, Carpi G, Shields TM, Hamapumbu H, Searle KM, Kobayashi T, Katowa B, Musonda M, Stevenson JC, Thuma PE, Greenhouse B, Moss WJ, Norris DE. J Infect Dis. 2019 Apr 8;219(8):1254-1263.

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DOI:

10.1093/infdis/jiy640.

 

temporal changes in malaria

Persistent Parasitemia Despite Dramatic Reduction in Malaria Incidence After 3 Rounds of Indoor Residual Spraying in Tororo, Uganda

Nankabirwa JI, Briggs J, Rek J, Arinaitwe E, Nayebare P, Katrak S, Staedke SG, Rosenthal PJ, Rodriguez-Barraquer I, Kamya MR, Dorsey G, Greenhouse B. J Infect Dis. 2019 Mar 15;219(7):1104-1111.

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DOI:

10.1093/infdis/jiy628

 

malaria transmission

Mapping malaria by combining parasite genomic and epidemiologic data

Wesolowski A, Taylor AR, Chang HH, Verity R, Tessema S, Bailey JA, Alex Perkins T, Neafsey DE, Greenhouse B, Buckee CO. BMC Med. 2018 Oct 18;16(1):190.

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DOI:

10.1186/s12916-018-1181-9

 

designing combined antibodies to measure exposure recency assays (CAMERAs)

Taking Sharper Pictures of Malaria with CAMERAs: Combined Antibodies to Measure Exposure Recency Assays

Greenhouse B, Smith DL, Rodríguez-Barraquer I, Mueller I, Drakeley CJ. Am J Trop Med Hyg. 2018 Nov;99(5):1120-1127.

PDF

DOI:

10.4269/ajtmh.18-0303

 

Anti parasite

Quantification of anti-parasite and anti-disease immunity to malaria as a function of age and exposure

Isabel Rodriguez-Barraquer, Emmanuel Arinaitwe, Prasanna Jagannathan, Moses R Kamya, Phillip J Rosenthal, John Rek, Grant Dorsey, Joaniter Nankabirwa, Sarah G Staedke, Maxwell Kilama, Chris Drakeley, Isaac Ssewanyana, David L Smith, Bryan Greenhouse. Elife. 2018 Jul 25

PDF

DOI:

10.7554/eLife.35832

 

Proportion of study population with microscopic and submicroscopic parasitaemia

Clinical consequences of submicroscopic malaria parasitaemia in Uganda

Shereen Katrak, Patience Nayebare, John Rek, Emmanuel Arinaitwe, Joaniter I. Nankabirwa, Moses Kamya, Grant Dorsey, Philip J. Rosenthal & Bryan Greenhouse.  Malar J. 2018 Feb 5;17(1):67.

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DOI:

10.1186/s12936-018-2221-9

 

Estimates of COI in Nagongera, Walukuba, and Kihihi

THE REAL McCOIL: A method for the concurrent estimation of the complexity of infection and SNP allele frequency for malaria parasites

Chang HH, Worby CJ, Yeka A, Nankabirwa J, Kamya MR, Staedke SG, Dorsey G, Murphy M, Neafsey DE, Jeffreys AE, Hubbart C, Rockett KA, Amato R, Kwiatkowski DP, Buckee CO, Greenhouse B. PLoS Comput Biol. 2017 Jan 26;13(1):e1005348.

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DOI: 10.1371/journal.pcbi.1005348

 

Vaccine Groups

The Long-Term Safety, Public Health Impact, and Cost-Effectiveness of Routine Vaccination with a Recombinant, Live-Attenuated Dengue Vaccine (Dengyaxia): A Model Comparison Study

Stefan Flasche, Mark Jit, Isabel Rodríguez-Barraquer, Laurent Coudeville, Mario Recker, Katia Koelle, George Milne, Thomas Hladish, T. Alex Perkins, Derek Cummings, Ilaria Dorigatti, Daniel Laydon, Guido España, Joel Kelso, Ira Longini, Jose Lourenco, Carl Pearson, Robert Reiner, Luis Mier-y-Terán-Romero, Kirsten Vannice, Neil Ferguson. PLoS Med. 2016 Nov 29;13(11):e1002181.

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DOI: 10.1371/journal.pmed.1002181

 

Vaccine Science

Benefits and risks of the Sanofi-Pasteur dengue vaccine: Modeling optimal deployment

Neil M. Ferguson, Isabel Rodríguez-Barraquer, Ilaria Dorigatti, Luis Mier-y-Teran-Romero, Daniel Laydon, Derek Cummings. Science. 2016 Sep 2;353(6303):1033-1036.

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DOI: 10.1126/science.aaf9590

 

Elements of the falciparum malaria transmission cycle

Quantitative, model-based estimates of variability in the generation and serial intervals of Plasmodium falciparum malaria

Huber JH, Johnston GL, Greenhouse B, Smith DL, Perkins TA. Malar J. 2016 Sep 22;15(1):490.

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DOI:

10.1186/s12936-016-1537-6

 

TCC Exposure

Quantifying Heterogeneous Malaria Exposure and Clinical Protection in a Cohort of Ugandan Children

Isabel Rodriguez-Barraquer, Emmanuel Arinaitwe, Prasanna Jagannathan, Michelle J. Boyle, Jordan Tappero, Mary Muhindo, Moses R. Kamya, Grant Dorsey, Chris Drakeley, Isaac Ssewanyana, David L. Smith, Bryan Greenhouse. J Infect Dis. 2016 Oct 1;214(7):1072-80.

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DOI:

10.1093/infdis/jiw301

 

Zika Global

Assessing the global threat from Zika virus

Lessler J, Chaisson LH, Kucirka LM, Bi Q, Grantz K, Salje H, Carcelen AC, Ott CT, Sheffield JS, Ferguson NM, Cummings DA, Metcalf CJ, Rodriguez-Barraquer I. Science. 2016 Aug 12;353(6300):aaf8160.

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DOI: 10.1126/science.aaf8160

 

B cell kinetics following acute malaria.

B cell sub-types following acute malaria and associations with clinical immunity

Richard T. Sullivan, Isaac Ssewanyana, Samuel Wamala, Felistas Nankya, Prasanna Jagannathan, Jordan W. Tappero, Harriet Mayanja-Kizza, Mary K. Muhindo, Emmanuel Arinaitwe, Moses Kamya, Grant Dorsey, Margaret E. Feeney, Eleanor M. Riley, Chris J. Drakeley & Bryan Greenhouse. Malar J. 2016 Mar 3;15:139.

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DOI: 

10.1186/s12936-016-1190-0

 

Geographic heterogeneity in Pf exposure

Novel serologic biomarkers provide accurate estimates of recent Plasmodium falciparum exposure for individuals and communities

Danica A. Helb, Kevin K. A. Tetteh, Philip L. Felgner, Jeff Skinner, Alan Hubbard, Emmanuel Arinaitwe, Harriet Mayanja-Kizza, Isaac Ssewanyana, Moses R. Kamya, James G. Beeson, Jordan Tappero, David L. Smith, Peter D. Crompton, Philip J. Rosenthal, Grant Dorsey, Christopher J. Drakeley, and Bryan Greenhouse. PNAS August 11, 2015 112 (32) E4438-E4447.

PDF

DOI: 10.1073/pnas.1501705112

 

Chennai

The Hidden Burden of Dengue and Chikungunya in Chennai, India

Isabel Rodríguez-Barraquer ,Sunil Solomon, Periaswamy Kuganantham, Aylur Kailasom Srikrishnan, Canjeevaram Vasudevan, Syed Iqbal, Pachamuthu Balakrishnan, Suniti Solomon, Shruti Mehta, Derek Cummings. PLoS Negl Trop Dis. 2015 Jul 16;9(7):e0003906.

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DOI: 10.1371/journal.pntd.0003906

 

Whole-transcriptome analysis of atypical and classical MBCs from parasitemic, but asymptomatic, subjects.

FCRL5 Delineates Functionally Impaired memory B Cells Associated with Plasmodium falciparum Exposure

Richard Sullivan ,Charles Kim, Mary Fontana, Margaret Feeney, Prasanna Jagannathan, Michelle Boyle, Chris Drakeley, Isaac Ssewanyana, Felistas Nankya, Harriet Mayanja-Kizza, Grant Dorsey, Bryan Greenhouse . PLoS Pathog. 2015 May 19;11(5):e1004894.

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DOI: 10.1371/journal.ppat.1004894

 

Vaccine Perils

Potential opportunities and perils of imperfect dengue vaccines

Rodriguez-Barraquer I, Mier-y-Teran-Romero L, Schwartz IB, Burke DS, Cummings DA. Vaccine. 2014 Jan 16;32(4):514-20.

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DOI: 10.1016/j.vaccine.2013.11.020

 

Rayong

Revisiting Rayong: shifting seroprofiles of dengue in Thailand and their implications for transmission and control

Isabel Rodríguez-Barraquer, Rome Buathong, Sopon Iamsirithaworn, Ananda Nisalak, Justin Lessler, Richard G. Jarman, Robert V. Gibbons, Derek A.T. Cummings. Am J Epidemiol. 2014 Feb 1;179(3):353-60

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DOI: 10.1093/aje/kwt256

 

Vaccine Challenges

Challenges in the interpretation of dengue vaccine trial results

Isabel Rodriguez-Barraquer, Luis Mier-y-Teran-Romero, Donald Burke, Derek Cummings. PLoS Negl Trop Dis. 2013 Aug 29;7(8):e2126.

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DOI: 10.1371/journal.pntd.0002126

 

Age specific seroprevalence of dengue in Recife, 2006.

From re-emergence to hyperendemicity: the natural history of the dengue epidemic in Brazil

Isabel Rodriguez-Barraquer, Marli Cordeiro,Cynthia Braga, Wayner de Souza, Ernesto Marques, Derek Cummings. PLoS Negl Trop Dis. 2011 Jan 4;5(1):e935.

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DOI: 10.1371/journal.pntd.0000935

 

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