A

Abbott, S and Bosse, N (2022). epiforecasts/simplified-forecaster-evaluation. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.7189308

Abbott, S and Sherratt, K (2022). seabbs/ecdc-weekly-growth-forecasts. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.7189620

Alcayna, T, Fletcher, I, Gibb, R, Tremblay, L, Funk, S, Rao, B and Lowe, R (2022). Supplementary Material: Climate-sensitive disease outbreaks in the aftermath of extreme climatic events: a scoping review. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6376135

Atkins, KE and Hodgson, D (2022). katiito/rsvvaccines_amr. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.7185501

Avoka, CK, Banke-Thomas, A, Beňová, L, Radovich, E and Campbell, OMR (2022). Use of motorised transport and pathways to childbirth care in health facilities: Evidence from the 2018 Nigeria Demographic and Health Survey. S1 Data. [Data Collection]. PLOS Global Public Health. https://doi.org/10.1371/journal.pgph.0000868.s009

actions-user, Sherratt, K, Gruson, H, Funk, S, Bracher, J, BIOCOM-SC, Walraven, R, miraanto, h-veronika, Rodiah, I, gr3gr3, Kraus, D, hgurung-iem, epiforecasts-bot, Xu, FT, Heyder, S, aniruddhadiga, Abbott, S, Sun, T, Mingio, M, Deuschel, J, pmontman, janezz25, neele-itwm, Gibson, G, EpiGraph, Tarantino, B, Karlen, D, Bhatia, S and borjarv (2022). covid19-forecast-hub-europe/covid19-forecast-hub-europe. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6401421

B

Bacigalupo, S, Ruby Chang, Y, Dixon, L, Gubbins, S, Kucharski, AJ and Drewe, J (2022). The importance of fine-scale predictors of wild boar habitat use in an isolated population. [Data Collection]. Dryad. https://doi.org/10.5061/dryad.4mw6m90cx

Banke-Thomas, A (2022). Intra-facility_maternal_deaths_Lagos_2018-2019. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.20098148.v1

Barnard, RC (2022). rosannaclairebarnard/covidm-mtd-Omi. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6806636

Barnsley, G and Watson, OJ (2022). mrc-ide/covid-vaccine-impact-orderly. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6539430

Beckwith, P, Tlali, M, Charalambous, S, Churchyard, GJ, Fielding, K, Hoffmann, CJ, Johnson, S, Wood, N, Grant, AD and Karat, AS (2022). Causes and outcomes of admission and investigation of tuberculosis in adults with advanced HIV in South African hospitals: data from the TB Fast Track trial. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00002393.

Benest, J (2022). ISIDLSHTM/CoBeDOA. [Data Collection]. GitHub. https://github.com/ISIDLSHTM/CoBeDOA

Benest, J (2022). ISIDLSHTM/CoBeDOA_Data. [Data Collection]. GitHub. https://github.com/ISIDLSHTM/CoBeDOA_Data

Benest, J, Rhodes, S, Evans, TG and White, RG (2022). ISIDLSHTM/Model_Size_Selection. [Data Collection]. Github. https://github.com/ISIDLSHTM/Model_Size_Selection

Bhattarai, S, Adhikari, A, Rayamajhee, B, Dhungana, J, Singh, M, Koirala, S and Shakya, DR (2022). Data_Sheet_1_Participatory Approach to Develop Evidence-Based Clinical Ethics Guidelines for the Care of COVID-19 Patients: A Mixed Method Study From Nepal. [Data Collection]. Frontiers. https://doi.org/10.3389/fpubh.2022.873881.s001

Biggs, JR, Sy, AK, Ashall, J, Santoso, MS, Brady, OJ, Reyes, MAJ, Quinones, MA, Jones-Warner, W, Tandoc, AO, Sucaldito, NL, Huynh, KM, Le, TL, Hung, DT, Nguyen, HAT, Dang, DA, Iwasaki, C, Kitamura, N, Van Loock, M, Herrera-Taracena, G, Menten, J, Rasschaert, F, Van Wesenbeeck, L, Masyeni, S, Haryanto, S, Yohan, B, Cutiongco-de la Paz, E, Yoshida, L, Hue, S, Capeding, MRZ, Padilla, CD, Sasmono, RT, Hafalla, JCR and Hibberd, ML (2022). A summary of data collected from suspected dengue patients included in the study population from Indonesia, Vietnam and the Philippines. [Data Collection]. PLoS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0010365.s001

Biggs, J, Sy, AK, Ashall, J, Santoso, MS, Brady, OJ, Reyes, MAJ, Quinones, MA, Jones-Warner, W, Tandoc, AO, Sucaldito, NL, Huynh, KM, Le, TL, Hung, DT, Nguyen, HAT, Dang, DA, Iwasaki, C, Kitamura, N, Van Loock, M, Herrera-Taracena, G, Menten, J, Rasschaert, F, Van Wesenbeeck, L, Masyeni, S, Haryanto, S, Yohan, B, Cutiongco-de la Paz, E, Yoshida, L, Hue, S, Capeding, MRZ, Padilla, CD, Sasmono, RT, Hafalla, JCR and Hibberd, ML (2022). Demographic characteristics of the reporting study population at enrolment. [Data Collection]. PLOS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0010365.s002

Biggs, J, Sy, AK, Ashall, J, Santoso, MS, Brady, OJ, Reyes, MAJ, Quinones, MA, Jones-Warner, W, Tandoc, AO, Sucaldito, NL, Huynh, KM, Le, TL, Hung, DT, Nguyen, HAT, Dang, DA, Iwasaki, C, Kitamura, N, Van Loock, M, Herrera-Taracena, G, Menten, J, Rasschaert, F, Van Wesenbeeck, L, Masyeni, S, Haryanto, S, Yohan, B, Cutiongco-de la Paz, E, Yoshida, L, Hue, S, Capeding, MRZ, Padilla, CD, Sasmono, RT, Hafalla, JCR and Hibberd, ML (2022). Sensitivity (95%CI) of NS1 RDTs in capturing DENV1-4 infections stratified by immune status among patients from Vietnam (N:1,217). [Data Collection]. PLOS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0010365.s003

Blencowe, H, Bradley, E, Lawn, JE, Ohuma, E, Okwaraji, Y, Suarez Idueta, L and Yargawa, J (2022). Vulnerable Newborn Measurement Collaboration. [Project]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00003095.

Bonnet, G, Pizzitutti, F, Gonzales-Gustavson, EA, Gabriël, S, Pan, WK, Garcia, HH, Bustos, JA, Vilchez, P and O’Neal, SE (2022). Dataset for calcified NCC (Matapalo area villages). [Data Collection]. PLOS Computational Biology. https://doi.org/10.1371/journal.pcbi.1010118.s006

Bonnet, G, Pizzitutti, F, Gonzales-Gustavson, EA, Gabriël, S, Pan, WK, Garcia, HH, Bustos, JA, Vilchez, P and O’Neal, SE (2022). Dataset for epilepsy figures (Tumbes region). [Data Collection]. PLOS Computational Biology. https://doi.org/10.1371/journal.pcbi.1010118.s005

Bosse, N, Abbott, S and Funk, S (2022). epiforecasts/covid.german.forecasts. [Data Collection]. Github. https://github.com/epiforecasts/covid.german.forecasts

Bosse, N, Abbott, S, Reich, NG and Funk, S (2022). epiforecasts/scoringutils. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4618017

C

Cerqueira-Silva, T, de Araujo Oliveira, V, Paixão, ES, Júnior, JB, Penna, GO, Werneck, GL, Pearce, N, Barreto, ML, Boaventura, VS and Barral-Netto, M (2022). Duration of protection of CoronaVac plus heterologous BNT162b2 booster in the Omicron period in Brazil. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6657862

Chan, K, Tusting, LS, Bottomley, C, Saito, K and Lines, J (2022). Replication Data for: Malaria transmission and prevalence in rice-growing versus non-rice-growing villages in Africa: a systematic review and meta-analysis. [Data Collection]. Harvard Dataverse. https://doi.org/10.7910/DVN/PXF0JX

Checchi, F (2022). francescochecchi/mortality_capture_recapture_analysis. [Data Collection]. Github. https://github.com/francescochecchi/mortality_capture_recapture_analysis

Checchi, F, Frison, S and Warsame, A (2022). francescochecchi/acute_malnutrition_predictive_models. [Data Collection]. Github. https://github.com/francescochecchi/acute_malnutrition_predictive_models

Clark, R, Mukandavire, C, Weerasuriya, C, Bakker, R and White, RG (2022). TBVAX Model. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6421372

Colón-González, FDJ, Gibb, R, Khan, K, Watts, A, Lowe, R and Brady, OJ (2022). Projecting the future incidence and burden of dengue in Southeast Asia. [Data Collection]. OSF. https://doi.org/10.17605/OSF.IO/85XWQ

D

Davidson, J, Banerjee, A, Smeeth, L and Warren-Gash, C (2022). Codelists for: "Acute cardiovascular events after SARS-CoV-2 infection in England in 2020: a self-controlled case series study". [Project]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00002763.

Davidson, J, Herrett, E, Strongman, H and Gadd, S (2022). emilyherrett/qrisk_cprd_aurum: QRISK Aurum bundle version 2.0. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5822520

Davidson, J, Mcdonald, H, Strongman, H, Cadogan, S, Banerjee, A, Smeeth, L and Warren-Gash, C (2022). Codelists for: "Effect of cardiovascular risk profile on severe outcomes of COVID-19 in England in 2020: a population-based cohort study". [Project]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00002762.

Dobreva, Z, Gimma, A, Rohan, H, Djoudalbaye, B, Tshangela, A, Jarvis, CI, Van Zandvoort, K and Quaife, M (2022). Additional file 1 of Characterising social contacts under COVID-19 control measures in Africa. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.21316250.v1

E

Endo, A (2022). akira-endo/reanalysis_Fukumoto2021: 'Not finding causal effect' is not 'finding no causal effect' of school closure on COVID-19. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6457915

Endo, A, Murayama, H, Abbott, S, Ratnayake, R, Pearson, CAB, Edmunds, WJ, Fearon, E and Funk, S (2022). akira-endo/monkeypox_heavytail: Heavy-tailed sexual contact networks and the epidemiology of monkeypox outbreak in non-endemic regions. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6984337

Endo, A, Uchida, M, Liu, Y, Atkins, KE, Kucharski, AJ and Funk, S (2022). akira-endo/schooldynamics_FluMatsumoto14-15: Simulating respiratory disease transmission within and between classrooms to assess pandemic management strategies at schools. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5604502

F

Finch, E and Kucharski, AJ (2022). EmilieFinch/covid-reinfection. [Data Collection]. Github. https://github.com/EmilieFinch/covid-reinfection

Foster, N, Nguyen, HV, Nguyen, NV, Nguyen, HB, Cobelens, F, Tiemersma, EW, Quaife, M and Houben, R (2022). Viet Nam tuberculosis prevalence survey: equity analysis code. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00002373.

Fu, Y, Wang, D, Chuang, J and Fu, H (2022). Social contact data for Taiwan. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6385758

Funk, S (2022). epiforecasts/ons_severity_estimates. [Data Collection]. Github. https://github.com/epiforecasts/ons_severity_estimates

G

Gibbs, H, Waterlow, NR, Cheshire, J, Danon, L, Liu, Y, Grundy, C, Kucharski, AJ and Eggo, RM (2022). hamishgibbs/facebook_population_2020_2021. [Data Collection]. Github. https://github.com/hamishgibbs/facebook_population_2020_2021

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). 99% credible set SNPs for leprosy association at chromosome 10q24. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s016

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). Analysis of pleiotropy at the leprosy association at chromosome 10q24. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s018

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). Association statistics for imputed classical HLA alleles and leprosy risk in Malawi and Mali. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s022

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). Chromatin state at chromosome 10q24. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s020

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). Genome-wide association study of leprosy in Malawi and Mali. S2 Table. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s015

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). Leprosy association statistics for suggestive associations in Malawi. S1 Table. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s014

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). Regulatory function at the chromosome 10q24 leprosy association. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s021

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). Replication of previously-published leprosy associated non-HLA SNPs in Malawi and Mali. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s023

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). Replication of previously-published leprosy associated non-HLA SNPs in Malawi and Mali stratified by multibacillary and paucibacillary disease. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s024

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). SNP quality control summary in Malawi and Mali. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s026

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). Sample quality control summary in Malawi and Mali. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s025

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). Selection signatures at chromosome 10q24. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s019

Gilchrist, JJ, Auckland, K, Parks, T, Mentzer, AJ, Goldblatt, L, Naranbhai, V, Band, G, Rockett, KA, Toure, OB, Konate, S, Sissoko, S, Djimdé, AA, Thera, MA, Doumbo, OK, Sow, S, Floyd, S, Pönnighaus, JM, Warndorff, DK, Crampin, AC, Fine, PEM, Fairfax, BP and Hill, AVS (2022). Study populations and leprosy association statistics at rs2015583 in the Chinese replication analysis. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1010312.s017

Gimma, A, Munday, JD, Wong, KLM, Coletti, P, Van Zandvoort, K, Prem, K, Klepac, P, Rubin, GJ, Funk, S, Edmunds, WJ and Jarvis, CI (2022). Mean contacts by age and date. [Data Collection]. PLOS Medicine. https://doi.org/10.1371/journal.pmed.1003907.s015

Gimma, A, Wong, KL, Coletti, P and Jarvis, CI (2022). CoMix social contact data (Croatia). [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6535325

Gimma, A, Wong, KL, Coletti, P and Jarvis, CI (2022). CoMix social contact data (Finland). [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6542663

Gimma, A, Wong, KL, Coletti, P and Jarvis, CI (2022). CoMix social contact data (Hungary). [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6535343

Gimma, A, Wong, KL, Coletti, P and Jarvis, CI (2022). CoMix social contact data (Lithuania). [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6542667

Gimma, A, Wong, KL, Coletti, P and Jarvis, CI (2022). CoMix social contact data (Slovakia). [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6535356

Gimma, A, Wong, KL, Coletti, P and Jarvis, CI (2022). CoMix social contact data (Switzerland). [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6542656

Gimma, A, Wong, KL, Coletti, P and Jarvis, CI (2022). CoMix social contact data (Estonia). [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6535312

Grant, AD and Kielmann, K (2022). Qualitative and Quantitative Data for Tuberculosis Infection Prevention and Control in KwaZulu-Natal and Western Cape, South Africa, 2018-2021. [Data Collection]. UK Data Service, Colchester, Essex, United Kingdom. https://doi.org/10.5255/UKDA-SN-854435

Grenié, M, Gruson, H, Silge, J and Tucker, C (2022). Rekyt/funrar. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.596011

Gruson, H and Grenié, M (2022). fundiversity: Easy Computation of Functional Diversity Indices. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4761754

Gruson, H and actions-user (2022). Bisaloo/asymptor. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4326986

H

Hodgson, D and Abbott, S (2022). dchodge/hero-study: Version submitted with WOR reviewers comments. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5215671

I

Imam, A, Gathara, D, Aluvaala, J, Maina, M and English, M (2022). Additional file 1 of Evaluating the effects of supplementing ward nurses on quality of newborn care in Kenyan neonatal units: protocol for a prospective workforce intervention study. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.21275873.v1

J

Jarju, S, Senghore, E, Brotherton, H, Saidykhan, A, Jallow, S, Krubally, E, Sinjanka, E, Ndene, MN, Bajo, F, Sanyang, MM, Saidy, B, Bah, A, Mohammed, NI, Forrest, K, Clarke, E, Dalessandro, U, Sesay, AK, Usuf, E, Cerami, C, Roca, A, Kampmann, B and De silva, T (2022). Circulation of respiratory viruses during the COVID-19 pandemic in the Gambia. [Data Collection]. Open Science Framework. https://doi.org/10.17605/OSF.IO/TSF78

Jombart, T, actions-user, Gruson, H and Pavlich-Mariscal, J (2022). epiverse-trace/blueprints: 0.0.2. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.7062318

K

Keddie, S (2022). shk313/diagnostic-test-metaanalysis/CrAg. [Data Collection]. GitHub. https://github.com/shk313/diagnostic-test-metaanalysis/tree/main/CrAg

Keddie, S, Bärenbold, O, Keogh, R and Bradley, J (2022). Stan models for diagnostic tests accuracy simulation; Accompaniment for Journal Article. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6616490

Kibirige, D, Sekitoleko, I, Balungi, P, Kyosiimire-Lugemwa, J and Lumu, W (2022). Additional file 1 of Clinical, metabolic, and immunological characterisation of adult Ugandan patients with new-onset diabetes and low vitamin D status. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.21130068.v1

Kibondo, UA, Odufuwa, OG, Ngonyani, SH, Mpelepele, AB, Matanilla, I, Ngonyani, H, Makungwa, NO, Mseka, AP, Swai, K, Ntabaliba, W, Stutz, S, Austin, JW and Moore, SJ (2022). Additional file 3 of Influence of testing modality on bioefficacy for the evaluation of Interceptor® G2 mosquito nets to combat malaria mosquitoes in Tanzania. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.19582050.v1

Kiniry, SJ and Judge, C (2022). skiniry/Trips-Viz. [Data Collection]. Github. https://github.com/skiniry/Trips-Viz

Kisesa HIV Open Cohort study and ALPHA Network (2022). ALPHA HIV Incidence and Mortality Data, Kisesa 1994-2016. [Data Collection]. DataFirst, Cape Town, South Africa. https://doi.org/10.25828/SGBS-Q698

Knight, G and Baede, VO (2022). gwenknight/strain_growth. [Data Collection]. Github. https://github.com/gwenknight/strain_growth

Koltai, M and Krauer, F (2022). mbkoltai/RSV-resurgence-model. [Data Collection]. Github. https://github.com/mbkoltai/RSV-resurgence-model

Krauer, F (2022). fkrauer/RSV-seasonality-public. [Data Collection]. Github. https://github.com/fkrauer/RSV-seasonality-public

L

Leclerc, QJ (2022). qleclerc/mrsa_phage_dynamics. [Data Collection]. Github. https://github.com/qleclerc/mrsa_phage_dynamics

Lee, SA (2022). sophie-a-lee/spatial_smooth_framework: Data and R code to accompany 'A Bayesian modelling framework to quantify multiple sources of spatial variation for disease mapping'. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.7054456

Liu, Y (2022). yangclaraliu/COVID_Vac_Delay. [Data Collection]. Github. https://github.com/yangclaraliu/COVID_Vac_Delay

Lucinde, RK, Mugo, D, Bottomley, C, Karani, A, Gardiner, E, Aziza, R, Gitonga, JN, Karanja, H, Nyagwange, J, Tuju, J, Wanjiku, P, Nzomo, E, Kamuri, E, Thuranira, K, Agunda, S, Nyutu, G, Etyang, AO, Adetifa, IMO, Kagucia, E, Uyoga, S, Otiende, M, Otieno, E, Ndwiga, L, Agoti, CN, Aman, RA, Mwangangi, M, Amoth, P, Kasera, K, Nyaguara, A, Ng’ang’a, W, Ochola, LB, Namdala, E, Gaunya, O, Okuku, R, Barasa, E, Bejon, P, Tsofa, B, Ochola-Oyier, LI, Warimwe, GM, Agweyu, A, Scott, JAG and Gallagher, KE (2022). Stan code and input data for estimating adjusted seroprevalence. [Data Collection]. PLOS ONE. https://doi.org/10.1371/journal.pone.0265478.s005

M

MRC/UVRI and White, R (2022). Respondent-Driven Sampling and Total Population Data from a Rural Ugandan Cohort, 2010: Special Licence Access. [Data Collection]. UK Data Service, Essex, United Kingdom. https://doi.org/10.5255/UKDA-SN-7462-1

McCreesh, N, Middelkoop, K and Mohlamonyane, M (2022). Cape Town social contact data. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00002756.

McQuaid, CF, Henrion, MYR, Burke, RM, MacPherson, P, Nzawa-Soko, R and Horton, KC (2022). Additional file 1 of Inequalities in the impact of COVID-19-associated disruptions on tuberculosis diagnosis by age and sex in 45 high TB burden countries. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.21550982.v1

Meakin, S and Abbott, S (2022). epiforecasts/covid19-hospital-activity. [Data Collection]. Github. https://github.com/epiforecasts/covid19-hospital-activity

Messenger, LA and Pelloquin, B (2022). Code for analysis of mosquito microbiota data. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4548775

Modell, B, Darlison, MW, Moorthie, S, Blencowe, H, Petrou, M and Lawn, JE (2022). Epidemiological Methods in Community Genetics and the Modell Global Database of Congenital Disorders (MGDb). [Project]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00003014.

Mosha, MV, Paulo, HA, Msuya, SE, Grosskurth, H and Filteau, S (2022). Additional file 2 of Lack of an association between dietary patterns and adiposity among primary school children in Kilimanjaro Tanzania. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.19634914.v1

Mulwa, S, Chimoyi, L, Agbla, S, Osindo, J, Wambiya, EO, Gourlay, A, Birdthistle, I, Ziraba, A and Floyd, S (2022). Summary characteristics of AGYW by schooling status at baseline and by invitation to DREAMS. [Data Collection]. PLOS One. https://doi.org/10.1371/journal.pone.0255165.s010

Munday, JD, Jarvis, CI, Gimma, A, Wong, KL, Van Zandvoort, K, Funk, S and Edmunds, WJ (2022). Weekly CoMix contact matrices for UKHSA COVID-19 dashboard and ONS COVID-19 infection survey age-groups. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.7351950

Muriithi, FG, Banke-Thomas, A, Gakuo, R, Pope, K, Coomarasamy, A and Gallos, ID (2022). Supporting files for: "Individual, health facility and wider health system factors contributing to maternal deaths in Africa: A scoping review". [Data Collection]. PLOS Global Public Health.

Mustard, C, Haines, A, Belesova, K and Cousens, S (2022). Achieving good health with low environmental footprint - A comparison of national indicators dataset. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.21547854.v1

O

O'Reilly, KM (2022). kath-o-reilly/wbe_prevalence_england_python. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6674384

Oliphant, N, Ray, N, Curtis, A, Musa, E, Sesay, M, Kandeh, J, Kamara, A, Chimoun, EFT, Jackson, D and Doherty, T (2022). Supplementary appendix 1b of Oliphant NP, Ray N, Curtis A et al. Optimising scale and deployment of community health workers in Sierra Leone: a geospatial analysis. 2022. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5712134

Oliphant, N, Ray, N, Curtis, A, Musa, E, Sesay, M, Kandeh, J, Kamara, A, Chimoun, EFT, Jackson, D and Doherty, T (2022). Supplementary appendix 1b of Oliphant NP, Ray N, Curtis A et al. Optimizing scale and deployment of CHWs in Sierra Leone: a geospatial analysis. 2021. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5712134

P

Pearson, CAB, Russell, TW and Kucharski, AJ (2022). cmmid/SA2UK: CEA submission. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6979557

Pung, R (2022). rachaelpung/cruise_networks. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6009026

Q

Qian, GY, Clifford, S, Flasche, S and Papastylianou, T (2022). GeorgeYQian/Nha-Trang-Contact-Study-Data-and-Code. [Data Collection]. Github. https://github.com/GeorgeYQian/Nha-Trang-Contact-Study-Data-and-Code

R

Rees, E (2022). erees/leptoSerology. [Data Collection]. Github. https://github.com/erees/leptoSerology

Rehman, AM, Simms, V, McHugh, G, Mujuru, H, Ngwira, LG, Semphere, R, Moyo, B, Bandason, T, Odland, JO and Ferrand, RA (2022). Adherence to additional medication for management of HIV-associated comorbidities among older children and adolescents taking antiretroviral therapy. S1 Data. [Data Collection]. PLOS ONE. https://doi.org/10.1371/journal.pone.0269229.s001

Robert, A (2022). alxsrobert/evd-transmission-trees. [Data Collection]. Github. https://github.com/alxsrobert/evd-transmission-trees

Robinson, A, Versteeg, B, Shafi Abdurahman, O, Clatworthy, I, Shuka, G, Debe, D, Hordofa, G, Reis de Oliveira Gomes, L, Abraham Aga, M, Dumessa, G, Sarah, V, Macleod, D, Last, AR, Burton, MJ and Logan, JG (2022). Field entomology data from Ethiopian trachoma population survey and laboratory transmission experiments for Musca sorbens and Chlamydia trachomatis. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00003114.

Rotsaert, A, Sibanda, E, Hatzold, K, Johnson, C, Corbett, E, Neuman, M and Cowan, F (2022). Additional file 1 of Did you hear about HIV self-testing? HIV self-testing awareness after community-based HIVST distribution in rural Zimbabwe. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.18393032.v1

S

Sbarra, AN, Mosser, JF, Jit, M, Ferrari, M, Ramshaw, RE, O'Connor, P, Krause, LK, Rogowski, EL and Portnoy, A (2022). Estimating national-level measles case–fatality ratios in low-income and middle-income countries: an updated systematic review and modelling study. [Data Collection]. Zenodo. https://zenodo.org/record/7633577

Shanaube, K, Gachie, T, Hoddinott, G, Schaap, A, Floyd, S, Mainga, T, Bond, V, Hayes, R, Fidler, S and Ayles, H (2022). Depressive symptoms and HIV risk behaviours among adolescents enrolled in the HPTN071 (PopART) trial in Zambia and South Africa. Aggregate dataset. [Data Collection]. PLOS ONE. https://doi.org/10.1371/journal.pone.0278291.s012

Sherratt, K and Funk, S (2022). covid19-forecast-hub-europe/euro-hub-ensemble: Zenodo release. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6895699

Sturt, A, Webb, E, Bristowe, H and Bustinduy, A (2022). Data for: Expert review of images from hand-held colposcopy in Zambian women with genital schistosomiasis. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00003182.

Sturt, A, Webb, E and Bustinduy, A (2022). Data for: “The presence of hemoglobin in cervicovaginal lavage is not associated with genital schistosomiasis in Zambian women from the BILHIV study”. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00002983.

Sumner, T (2022). tomsumner/Variance_SA_TB. [Data Collection]. GitHub. https://github.com/tomsumner/Variance_SA_TB

Szekely, A, Gon, G, Lowe, H and Tosi, M (2022). Hand Hygiene Social Norms among Healthcare Workers During Early COVID-19: Results of a Global Survey. [Data Collection]. OSF. https://doi.org/10.17605/OSF.IO/AYKGH

T

Tewahido, D, Worku, A, Tadesse, AW, Gulema, H and Berhane, Y (2022). Focus group discussion transcripts. [Data Collection]. PLOS ONE. https://doi.org/10.1371/journal.pone.0263987.s002

Thindwa, D, Jambo, KC, Ojal, J, MacPherson, P, Dennis Phiri, M, Pinsent, A, Khundi, M, Chiume, L, Gallagher, KE, Heyderman, RS, Corbett, EL, French, N and Flasche, S (2022). deusthindwa/social.contact.rates.estimation.hiv.malawi. [Data Collection]. Github. https://github.com/deusthindwa/social.contact.rates.estimation.hiv.malawi

Thompson, JA, Leyrat, C, Fielding, KL and Hayes, RJ (2022). Additional file 2 of Cluster randomised trials with a binary outcome and a small number of clusters: comparison of individual and cluster level analysis method. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.20484843.v1

Timire, C, Sandy, C, Ferrand, RA, Mubau, R, Shiri, P, Mbiriyawanda, O, Mbiba, F, Houben, Rein M. G. J., Pedrazzoli, D, Bond, V, Foster, N and Kranzer, K (2022). Dataset: Cash transfer project. [Data Collection]. PLOS Global Public Health. https://doi.org/10.1371/journal.pgph.0001027.s004

V

Van Zandvoort, K, Bobe, MO, Hassan, AI, Abdi, MI, Ahmed, MS, Soleman, SM, Warsame, MY, Wais, MA, Diggle, E, Satzke, C, Mulholland, K, Egeh, MM, Hassan, MM, Hergeeye, MA, Eggo, RM, Checchi, F, Flasche, S and Mcgowan, CR (2022). Social contacts and other risk factors for respiratory infections among internally displaced people in Somaliland. Data and analyses. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5225140

van zandvoort, K, Bobe, MO, Hassan, AI, Abdi, MI, Ahmed, MS, Soleman, SM, Warsame, MY, Wais, MA, Diggle, E, McGowan, CR, Satzke, C, Mulholland, K, Egeh, MM, Hassan, MM, Hergeeye, MA, Eggo, RM, Checchi, F and Flasche, S (2022). kevinvzandvoort/espicc-somaliland-digaale-survey-2019. [Data Collection]. GitHub. https://github.com/kevinvzandvoort/espicc_somaliland_digaale_contact_survey_2019

W

Waterlow, N (2022). NaomiWaterlow/NextGenFlu_Kenya. [Data Collection]. GitHub. https://github.com/NaomiWaterlow/NextGenFlu_Kenya

Waterlow, N (2022). NaomiWaterlow/NhaTrang_flu_rsv_interaction. [Data Collection]. Github. https://github.com/NaomiWaterlow/NhaTrang_flu_rsv_interaction

Webb, E (2022). Combined HIV Adolescent Prevention Study (CHAPS). [Project]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00002891.

Webb, E (2022). Combined HIV Adolescent Prevention Study (CHAPS): qualitative survey data. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00002892.

Weerasuriya, CK (2022). weerasuriya/tbconvax-pcb. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5902656

Weerasuriya, C and Clark, R (2022). lshtm-tbmg/tbvax-pub. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6421372

Weiss, H (2022). Data for: "Menstrual health intervention and school attendance in Uganda (MENISCUS-2): A pilot intervention study". [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00001521.