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Global and regional molecular epidemiology of HIV-1, 1990–2015: a systematic review, global survey, and trend analysis
Joris Hemelaar, Ramyiadarsini Elangovan, Jason Yun, Leslie Dickson-Tetteh, Isabella Fleminger, Shona Kirtley, Brian Williams, Eleanor Gouws-Williams, Peter D. Ghys, Alash’le Abimiku, Simon M. Agwale, Chris Archibald, Boaz Avidor, María Gabriela Barbás, Françoise Barré‐Sinoussi, Banson Barugahare, El Hadj Belabbes, Silvia Bertagnolio, Deborah L. Birx, Aleksei F. Bobkov, James Brandful, Helba Bredell, Catherine A. Brennan, James Brooks, M Brûćková, Luigi Buonaguro, Franco M. Buonaguro, Stefano Buttò, Anne Buvé, Mary S. Campbell, Jean K. Carr, Alex Carrera, Manuel Gómez Carrillo, Connie Celum, Beth Chaplin, Macarthur Charles, Dimitrios Chatzidimitriou, Zhiwei Chen, Katsumi Chijiwa, David R. Cooper, Philip Cunningham, Anoumou Dagnra, Cillian De Gascun, Elena Delgado, Ursula Dietrich, Dominic E. Dwyer, Dennis Ellenberger, Barbara Ensoli, Max Essex, Feng Gao, Hervé Fleury, Peter N. Fonjungo, Vincent Foulongne, Deepak A. Gadkari, Féderico García, Roger Garsia, G. M. Gershy-Damet, Judith R Glynn, Ruth Goodall, Zehava Grossman, Monick Lindenmeyer-Guimarães, Beatrice H. Hahn, Raph L Hamers, Osamah Hamouda, Ray Handema, Xiang He, Joshua T. Herbeck, David D. Ho, África Holguín, Mina C. Hosseinipour, Gillian Hunt, Masahiko Ito, Mohamed Ali Bel Hadj Kacem, Erin Kahle, P. Kaleebu, Marcia L. Kalish, Adeeba Kamarulzaman, Chun Kang, Phyllis Kanki, Karamov Ev, Jean‐Claude Karasi, Kayitesi Kayitenkore, Dwip Kitayaporn, Leondios G. Kostrikis, Claudia Kücherer, Thomas Leitner, Kirsi Liitsola, Jai Lingappa, Marek Linka, Ivette Lorenzana, Vladimir V. Lukashov, Shlomo Maayan, Luzia Mayr, Francine McCutchan, Nicolas Méda, Elisabeth Menu, Fred Mhalu, Doreen Mloka, John L. Mokili, Brigitte Montès, Orna Mor, Mariza Gonçalves Morgado, Fausta Mosha, Awatef El Moussi, James I. Mullins, Rafael Nájera, Mejda Nasr, Nicaise Ndembi, Joel R. Neilson, Vivek R. Nerurkar, Florian Neuhann, Claudine Nolte, Vlad Novitsky, Philippe Nyambi, Marianna Ofner, Fem Julia Paladin, Anna Papa, Jean W. Pape, Neil Parkin, Chris M. Parry, Martine Peeters, Alexandra Pelletier, Lucía Pérez-Álvarez, Deenan Pillay, Angie N. Pinto, Trinh Duy Quang, Cecilia Rademeyer, Filimone Raikanikoda, Mark A. Rayfield, Jean‐Marc Reynes, Tobias Rinke de Wit, Kenneth E. Robbins, Morgane Rolland, Christine Rousseau, Jesus Salazar-Gonzales, Hanan Salem, Mika Salminen, Horacio Salomón, Paul Sandstrom, Mario L. Santiago, Abdoulaye Dieng Sarr, Bryan Schroeder, Michel Segondy, Philippe Selhorst, S. D. K. Sempala, Jean Servais, Ansari Shaik, Yiming Shao, Amine Slim, Marcelo A. Soares, Elijah Songok, Debbie Stewart, Julie Stokes, Shambavi Subbarao, Ruengpung Sutthent, Jun Takehisa, Amílcar Tanuri, Kok Keng Tee, Kiran Thapa, Michael M. Thomson, Tyna Tran, Willy Urassa, Hiroshi Ushijima, Philippe Van de Perre, Guido van der Groen, Kristel Van Laethem, Joep van Oosterhout, Ard van Sighem, Eric Van Wijngaerden, Anne‐Mieke Vandamme, Jurgen Vercauteren, Nicole Vidal, Lesley Wallace, Carolyn Williamson, Dawit Wolday, Jianqing Xu, Chunfu Yang, Linqi Zhang, Rong Zhang
Bibliographic record
VenueThe Lancet Infectious Diseases · 2018
Typereview
Languageen
FieldImmunology and Microbiology
TopicHIV Research and Treatment
Canadian institutionsnot available
FundersMedical Research CouncilFundação Oswaldo CruzAristotle University of ThessalonikiAbbott LaboratoriesUniversity of EdinburghKyoto UniversityUniversity of GhanaUniversity of North CarolinaWorld Health OrganizationUniversity of TokyoLos Alamos National LaboratoryMahidol UniversityNoguchi Memorial Institute for Medical Research, University of GhanaNational Cancer Research InstituteKyushu UniversityKU LeuvenInstituto Nacional de CiberseguridadUniversity of OxfordIstituto Superiore di SanitàSeoul National UniversityCity, University of LondonDuke UniversityUniversity of SydneyUniversity College DublinInstitut PasteurUniversity College LondonAcademy of Medical SciencesNational Institute for Health and Care ResearchLinacre College, University of OxfordMinisterio de Salud de la NaciónRockefeller UniversityInstituto de Salud Carlos IIIWentworth Institute of TechnologyWashington University School of Medicine in St. LouisPublic Health Agency of CanadaLondon School of Hygiene and Tropical MedicineMinistry of HealthSchool of Medicine, Vanderbilt UniversityUniversity of BirminghamAddis Ababa UniversityHenry M. Jackson FoundationUniversity of Hawai'iUniversity of Cape TownSchool of Medicine, Emory UniversitySchool of Medicine, New York UniversityOxford University Clinical Academic Graduate SchoolUniversidad de Buenos AiresHealth and Environmental Sciences InstituteKarolinska InstitutetUniversity of MarylandUniversity of PennsylvaniaUniversity of WashingtonHarvard School of Public Health
KeywordsHuman immunodeficiency virus (HIV)EpidemiologyMolecular epidemiologyRegional scienceData scienceGeographyMedicineEnvironmental healthFamily medicineComputer scienceBiologyPathologyGenetics
Abstract
No abstract in any covered source. Its absence is recorded, not treated as a negative.
No abstract. This is not a gap in this database; OpenAlex has none either. 23.3% of the frame is in this state, and the screen finds HALF as much metaresearch here, so the absence is a measured bias rather than a missing field.
How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
metaresearch head score (Codex)0.005
metaresearch head score (Gemma)0.014
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesMeta-epidemiology (broad)
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Systematic review · Consensus signal: Systematic review
GenreCandidate signal: Review · Consensus signal: Review
Teacher disagreement score0.995
Threshold uncertainty score0.030
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.005 | 0.014 |
| Meta-epidemiology (narrow) | 0.001 | 0.001 |
| Meta-epidemiology (broad) | 0.005 | 0.007 |
| Bibliometrics | 0.008 | 0.010 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.002 | 0.002 |
| Open science | 0.001 | 0.001 |
| Research integrity | 0.001 | 0.001 |
| Insufficient payload (model declined to judge) | 0.002 | 0.000 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
Opus teacher head0.053
GPT teacher head0.374
Teacher spread0.321 · how far apart the two teachers sit on this one work
Validation status
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
Study designSystematic review
Domainnot available
GenreReview
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".
Quick stats
Citations417
Published2018
Admission routes1
Has abstractno