Data Collection

Adegbola, AJ, Ijarotimi, OA, Ubom, AE, Adesoji, BA, Babalola, OE, Hocke, EF, Hansson, H, Mousa, A, Bolaji, OO, Alifrangis, M and Roper, C (2024). Additional file 1 of A snapshot of the prevalence of dihydropteroate synthase-431V mutation and other sulfadoxine-pyrimethamine resistance markers in Plasmodium falciparum isolates in Nigeria. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.26572123.v1

Aksamentov, I, Neher, R, Roemer, C, mt-gitlocalize, Parker, AA, Lin, V, Sibley, T, Negrón, DA, Nextstrain bot, Anderson, JS, Snyk bot, Hodcroft, E, Actat, Rubinsteyn, A, Grüning, B, Tegomoh, B, Chen, C, Bottoms, C, Maguire, F, Huddleston, J, Lee, J, Sanderson, T and Harkins, E (2024). nextstrain/nextclade. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5731501

Allen, DJ (2022). The impact of cognate strategy training on guessing accuracy for unknown visually-presented words: The case of Japanese learners of English. [Data Collection]. SAGE Journals. https://doi.org/10.25384/SAGE.c.6089659.v1

Ameer, A, Saleem, F, Keating, C, Gundogdu, O, Javed, S and Ijaz, UZ (2024). Dataset of 16S rRNA sequences of 111 healthy and Newcastle disease infected caecal samples from multiple chicken breeds of Pakistan. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.25795078.v1

Ashall, J, Shah, S, Biggs, JR, Chang, JR, Jafari, Y, Brady, OJ, Mai, HK, Lien, LT, Do Thai, H, Nguyen, HAT, Anh, DD, Iwasaki, C, Kitamura, N, Van Loock, M, Herrera-Taracena, G, Rasschaert, F, Van Wesenbeeck, L, Yoshida, L, Hafalla, JCR, Hue, S and Hibberd, ML (2023). Dengue virus type 4 isolate DET-P-0428-1 polyprotein (POLY) gene, complete cds; and sfRNA2 lncRNA gene, partial sequence. [Data Collection]. National Center for Biotechnology Information. https://www.ncbi.nlm.nih.gov/nuccore/OQ427062

Ashall, J, Shah, S, Biggs, JR, Chang, JR, Jafari, Y, Brady, OJ, Mai, HK, Lien, LT, Do Thai, H, Nguyen, HAT, Anh, DD, Iwasaki, C, Kitamura, N, Van Loock, M, Herrera-Taracena, G, Rasschaert, F, Van Wesenbeeck, L, Yoshida, L, Hafalla, JCR, Hue, S and Hibberd, ML (2023). Dengue virus type I isolate DEN-P-1098-1 polyprotein (POLY) gene, partial cds. [Data Collection]. National Center for Biotechnology Information. https://www.ncbi.nlm.nih.gov/nuccore/OQ426566.1/

Bickersmith, SA, Saavedra, MP, Prussing, C, Lange, RE, Morales, JA, Alava, F, Vinetz, JM, Gamboa, D, Moreno Leirana, M and Conn, JE (2024). Additional file 1 of Effect of spatiotemporal variables on abundance, biting activity and parity of Nyssorhynchus darlingi (Diptera: Culicidae) in peri-Iquitos, Peru. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.26709188.v1

Bousema, T, Collins, K, Ouedraogo, A, Guelbeogo, WM, Soulama, I, Ouattara, M, Sobie, S, Ouedraogo, N, Coulibaly, A, Nombre, A, Lanke, K, Ramjith, J, Awandu, S, Serme, S, Henry, N, Stone, WJR, Ouedraogo, I, Holden, T, Sirima, S, Bradley, J, Soremekun, S, Selvaraj, P, Gerardin, J, Drakeley, C and Tiono, A (2024). The impact of weekly fever-screening and treatment and monthly RDT testing and treatment on the infectious reservoir of malaria in Burkina Faso: results from a cluster-randomised trial. [Data Collection]. Dryad. https://doi.org/10.5061/dryad.fxpnvx117

Braima, KA, Piera, KA, Lubis, IND, Noviyanti, R, Rajahram, GS, Kariodimedjo, P, Nainggolan, IRA, Permatasari, R, Trianty, L, Amalia, R, Sakam, SS, Tan, AF, William, T, Westaway, JAF, Lee, P, Daim, S, Surendra, H, Christy, N, Letizia, AG, Peatey, CL, Moideen, MA, Barber, BE, Sutherland, CJ, Anstey, NM and Grigg, MJ (2025). Limit of detection dataset for PCR assays. [Data Collection]. PLOS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0012129.s001

Cerdeira, L, Dyson, ZA and Holt, KE (2023). typhoidgenomics/TyphiNET. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.5281/zenodo.5338903

Cerdeira, L, Sharma, V, Maranga, M, Carey, M, Dyson, ZA and Holt, KE (2024). amrnet/amrnet: AMRnet-v1.0. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.10810218

Chung The, H, Rabaa, MA, Pham Thanh, D, Ruekit, S, Wangchuk, S, Dorji, T, Pem Tshering, K, Nguyen Thi Nguyen, T, Voong Vinh, P, Ha Thanh, T, Nguyen Ngoc Minh, C, Turner, P, Sar, P, Thwaites, G, Holt, KE, Thomson, NR, Bodhidatta, L, Mason, CJ and Baker, S (2015). The introduction and establishment of fluoroquinolone resistant Shigella sonnei into Bhutan. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.1610693.v1

Churcher, TS, Bousema, T, Walker, M, Drakeley, C, Schneider, P, Ouédraogo, AL and Basáñez, M (2013). Data from: Predicting mosquito infection from Plasmodium falciparum gametocyte density and estimating the reservoir of infection. [Data Collection]. Dryad. https://doi.org/10.5061/dryad.0k402

Churcher, T, Stopard, I, Hamlet, A, Dee, D, Sanou, A, Rowland, M, Guelbeogo, M, Emidi, B, Mosha, J, Challenger, J, Denz, A, Charles, G, Russell, E, Fitzjohn, R, Winskill, P, Fornadel, C, Mclean, T, Digre, P, Wagman, J, Mosha, F, Cook, J, Akogbéto, M, Djogbenou, L, Ranson, H, Manjurano, A, N'fale, S, Protopopoff, N, Accrombessi, M, Ngufor, C, Foster, G and Sherrard-Smith, E (2023). MINT-data-v20230208. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.8344311

Cleghorn, LAT, Wall, RJ, Albrecht, S, MacGowan, SA, Norval, S, De Rycker, M, Woodland, A, Spinks, D, Thompson, S, Patterson, S, Corpas Lopez, V, Dey, G, Collie, IT, Hallyburton, I, Kime, R, Simeons, FRC, Stojanovski, L, Frearson, JA, Wyatt, PG, Read, KD, Gilbert, IH and Wyllie, S (2023). Development of a 2,4-Diaminothiazole Series for the Treatment of Human African Trypanosomiasis Highlights the Importance of Static–Cidal Screening of Analogues. [Data Collection]. ACS Publications. https://doi.org/10.1021/acs.jmedchem.3c00509.s002

Coll, F (2022). francesccoll/powerbacgwas. [Data Collection]. Github. https://github.com/francesccoll/powerbacgwas/

Cooper, HB, Vezina, B, Hawkey, J, Passet, V, López-Fernández, S, Monk, JM, Brisse, S, Holt, KE and Wyres, KL (2024). Supplemental Data for "A validated pangenome-scale metabolic model for the Klebsiella pneumoniae species complex.". [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.24871914.v1

Dorsey, G, Kamya, M, Greenhouse, B, Arinaitwe, E, Kilama, M, Nankabirwa, J, Rek, J, Nsobya, S, Mawejje, H, Nzarubara, B, Lavoy, G, Kizza, T, Musiime, A, Kigozi, S, Ssewanyana, I, Rosenthal, P, Rodriguez-Barraquer, I, Clark, T, Conrad, M, Staedke, SG, Drakeley, C, Donnelly, M, Lindsay, S, Smith, D, Bousema, T and Andolina, C (2023). Dataset: PRISM2 ICEMR Cohort. [Data Collection]. ClinEpiDB. https://clinepidb.org/ce/app/workspace/analyses/DS_51b40fe2e2/new

Drakeley, C, Dicko, A and Bousema, T (2024). Dataset: NECTAR1 Randomized Controlled Trial. [Data Collection]. ClinEpiDB. https://clinepidb.org/ce/app/workspace/analyses/DS_7b47eb7469/new

Drakeley, C, Dicko, A and Bousema, T (2024). Dataset: NECTAR2 Randomized Controlled Trial. [Data Collection]. ClinEpiDB. https://clinepidb.org/ce/app/workspace/analyses/DS_03d6476c6d/new

Drakeley, C, Dicko, A and Bousema, T (2024). Dataset: NECTAR3 Randomized Controlled Trial. [Data Collection]. ClinEpiDB. https://clinepidb.org/ce/app/workspace/analyses/DS_d00683a135/new

Drakeley, C, Dicko, A and Bousema, T (2024). Dataset: NECTAR4 Randomized Controlled Trial. [Data Collection]. ClinEpiDB. https://clinepidb.org/ce/app/workspace/analyses/DS_861ea66681/new

Dyson, ZA (2022). zadyson/SNV_Stats_Generator. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6581275

Dyson, ZA, Malau, E, Horwood, PF, Ford, R, Siba, V, Yoannes, M, Pomat, W, Passey, M, Judd, LM, Ingle, DJ, Williamson, DA, Dougan, G, Greenhill, AR and Holt, KE (2022). Accession numbers and data for S. Typhi sequences used in this study. [Data Collection]. PLOS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0010306.s005

Dyson, ZA, Malau, E, Horwood, PF, Ford, R, Siba, V, Yoannes, M, Pomat, W, Passey, M, Judd, LM, Ingle, DJ, Williamson, DA, Dougan, G, Greenhill, AR and Holt, KE (2022). Excluded repeat and phage regions in PNG MDUST348 2.1.7.2 completed reference sequence. [Data Collection]. PLOS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0010306.s006

Dyson, ZA, Malau, E, Horwood, PF, Ford, R, Siba, V, Yoannes, M, Pomat, W, Passey, M, Judd, LM, Ingle, DJ, Williamson, DA, Dougan, G, Greenhill, AR and Holt, KE (2022). Outgroups used for phylogenetic tree rooting. [Data Collection]. PLOS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0010306.s007

Eccleston, RC, Manko, E, Campino, S, Clark, TG and Furnham, N (2022). A computational method for predicting the most likely evolutionary trajectories in the stepwise accumulation of resistance mutations. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6122329

Eckold, C, van Doorn, CL, Dockrell, H, Ottenhoff, TH, Vianello, E and Cliff, JM (2023). Impaired resolution of blood transcriptomes through tuberculosis treatment with diabetes comorbidity. [Data Collection]. NCBI Gene Expression Omnibus. https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE193978

Fombah, AE, Chen, H, Owusu-Kyei, K, Quinto, L, Gonzalez, R, Williams, J, Berne, ML, Wassenaar, M, Jalloh, A, Sunders, J, Ramirez, M, Bertran-Cobo, C, Saute, F, Ekouevi, DK, Briand, V, Kamara, AR, Sesay, T, Samai, M and Menéndez, C (2023). MULTIPLY - Baseline household survey, Sierra Leone. [Data Collection]. CORA.Repositori de Dades de Recerca. https://doi.org/10.34810/data603

Foster-Nyarko, E, Holt, KE, Cottingham, H, Wick, R, Judd, LM, Lam, M, Wyres, KL, Stanton, T, Tsang, KK, David, S, Bridel, S, Palma, F, Aanensen, DM and Brisse, S (2023). Nanopore-only assemblies for genomic surveillance of the global priority drug-resistant pathogen, Klebsiella pneumoniae. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.19745608.v2

Garcia, KKS, Laporta, GZ, Soremekun, S, Bottomley, C, Abrahão, AA, Moresco, GG, Drakeley, C, Costa, AdP and Siqueira, AM (2024). Data repository for "Brazil towards malaria elimination: A time-series analysis of imported cases from 2007 to 2022". [Data Collection]. PLOS Global Public Health. https://doi.org/10.1371/journal.pgph.0003822.s001

Garcia, KKS, Soremekun, S, Abrahão, AA, Marchesini, PB, Drakeley, C, Ramalho, WM and Siqueira, AM (2024). Is Brazil reaching malaria elimination? A time series analysis of malaria cases from 2011 to 2023. [Data Collection]. PLOS Global Public Health. https://doi.org/10.1371/journal.pgph.0002845.s002

Garcia, KKS, Soremekun, S, Bottomley, C, Abrahão, AA, de Miranda, CB, Drakeley, C, Ramalho, WM and Siqueira, AM (2023). Additional file 2 of Assessing the impact of the “malaria supporters project” intervention to malaria control in the Brazilian Amazon: an interrupted time-series analysis. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.24151173.v1

Garcia, KKS, Soremekun, S, Bottomley, C, Abrahão, AA, de Miranda, CB, Drakeley, C, Ramalho, WM and Siqueira, AM (2023). Additional file 3 of Assessing the impact of the “malaria supporters project” intervention to malaria control in the Brazilian Amazon: an interrupted time-series analysis. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.24151176.v1

Gibson, AJ, Stiens, J, Passmore, IJ, Faulkner, V, Miculob, J, Willcocks, S, Coad, M, Berg, S, Werling, D, Wren, BW, Nobeli, I, Villarreal-Ramos, B and Kendall, SL (2022). Defining the genes required for survival of Mycobacterium bovis in the bovine host offers novel insights into the genetic basis of survival of pathogenic mycobacteria. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6598445

Gomes, MC, Brokatzky, D, Bielecka, MK, Wardle, FC and Mostowy, S (2023). Shigella induces epigenetic reprogramming of zebrafish neutrophils. [Data Collection]. NCBI Gene Expression Omnibus. https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE217063

Guevara, PD, Maes, M, Thanh, DP, Duarte, C, Rodriguez, EC, Montaño, LA, Dan, THN, Nguyen, TNT, Carey, ME, Campos, J, Chinen, I, Perez, E and Baker, S (2021). Profile of the organisms selected for sequencing. [Data Collection]. PLOS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0009755.s001

Hawkey, J, Wyres, KL, Judd, LM, Harshegyi, T, Blakeway, L, Wick, RR, Jenney, AWJ and Holt, KE (2022). Additional file 1 of ESBL plasmids in Klebsiella pneumoniae: diversity, transmission and contribution to infection burden in the hospital setting. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.20579653.v1

Hawkey, J, Wyres, KL, Judd, LM, Harshegyi, T, Blakeway, L, Wick, RR, Jenney, AWJ and Holt, KE (2022). Additional file 3 of ESBL plasmids in Klebsiella pneumoniae: diversity, transmission and contribution to infection burden in the hospital setting. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.20579659.v1

Hawkey, J, Wyres, KL, Judd, LM, Harshegyi, T, Blakeway, L, Wick, RR, Jenney, AWJ and Holt, KE (2022). Additional file 4 of ESBL plasmids in Klebsiella pneumoniae: diversity, transmission and contribution to infection burden in the hospital setting. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.20579662.v1

Heinz, E, Pearse, O, Zuza, A, Bilima, S, Msefula, C, Musicha, P, Siyabu, P, Tewesa, E, Graf, FE, Lester, R, Lissauer, S, Cornick, J, Lewis, JM, Kawaza, K, Thomson, NR and Feasey, NA (2024). Additional file 2 of Longitudinal analysis within one hospital in sub-Saharan Africa over 20 years reveals repeated replacements of dominant clones of Klebsiella pneumoniae and stresses the importance to include temporal patterns for vaccine design considerations. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.26716636.v1

Holt, KE (2016). Acinetobacter baumannii GC1 recombination analysis. [Data Collection]. University of Melbourne. https://doi.org/10.4225/49/5690B341A0FDB

Holt, KE (2023). Global Typhoid Genomics Consortium 2022 - Genome Assemblies. [Data Collection]. Monash University. https://doi.org/10.26180/21431883.v1

Holt, KE, Gorrie, C and Wyres, K (2021). Genome assemblies and pan-genome data for 328 clinical isolates of Klebsiella pneumoniae species complex, representing one year of infections diagnosed in a hospital diagnostic lab. [Data Collection]. Monash University. https://doi.org/10.26180/16811344

Holt, KE and Hawkey, J (2024). interpretAMR/AMRrules. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.12724318

Ijaz, UZ, Gundogdu, O, Keating, C, Eekert, Mv, Gibson, W, Parkhill, J, Abilahi, F, Liseki, B, Nguyen, V, Sudgen, S, Quince, C, Ensink, JHJ, Torondel, B and Walker, AW (2022). Analysis of pit latrine microbiota reveals depth-related variation in composition, and key parameters and taxa associated with latrine fill-up rate. [Data Collection]. Frontiers. https://doi.org/10.3389/fmicb.2022.960747.s008

Ikegawa, M, Kano, N, Ori, D, Fukuta, M, Hirano, M, Hewson, R, Yoshii, K, Kawai, T and Kawasaki, T (2024). HuR (ELAVL1) regulates the CCHFV minigenome and HAZV replication by associating with viral genomic RNA. [Data Collection]. PLOS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0012553.s001

Inouye, M, Dashnow, H, Pope, B, Wick, R and Holt, KE (2021). katholt/srst2. [Data Collection]. Github. https://github.com/katholt/srst2

Kane, L (2022). Investigation of Vibrio cholerae pathogenesis using a novel human intestinal model of infection. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/PUBS.04670346

Keegan, S and Fenton, A (2024). shaunkeegan/coinfection_spatial_scaling_paper. [Data Collection]. Github. https://github.com/shaunkeegan/coinfection_spatial_scaling_paper

Keegan, S, Pedersen, A and Fenton, A (2024). The impact of within-host coinfection interactions on between-host parasite transmission dynamics varies with spatial scale. [Data Collection]. Dryad. https://doi.org/10.5061/dryad.tdz08kq68

Koussis, K, Haase, S, Withers-Martinez, C, Flynn, HR, Kunzelmann, S, Christodoulou, E, Ibrahim, F, Skehel, M, Baker, DA and Blackman, MJ (2024). Kinetic properties of the recombinantly expressed PfPKGWT, PfPKGY214, PfPKGSTmut, PfPKGT695A, PfPKGT695E and CD analysis of PfPKGWT and PfPKGSTmut. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1012360.s018

Koussis, K, Haase, S, Withers-Martinez, C, Flynn, HR, Kunzelmann, S, Christodoulou, E, Ibrahim, F, Skehel, M, Baker, DA and Blackman, MJ (2024). Peak areas from the T695 phosphorylation. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1012360.s020

Koussis, K, Haase, S, Withers-Martinez, C, Flynn, HR, Kunzelmann, S, Christodoulou, E, Ibrahim, F, Skehel, M, Baker, DA and Blackman, MJ (2024). Phosphoproteome analyses of PKG_GFP, PKG_T695A and PKG_T695E in P. falciparum schizonts. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1012360.s021

Koussis, K, Haase, S, Withers-Martinez, C, Flynn, HR, Kunzelmann, S, Christodoulou, E, Ibrahim, F, Skehel, M, Baker, DA and Blackman, MJ (2024). Proteins identified from pull down experiments of WT, PKG_GFP, PKG_T695A and PKG_T695E. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1012360.s019

Koussis, K, Haase, S, Withers-Martinez, C, Flynn, HR, Kunzelmann, S, Christodoulou, E, Ibrahim, F, Skehel, M, Baker, DA and Blackman, MJ (2024). S1 Raw Data for: "Activation loop phosphorylation and cGMP saturation of PKG regulate egress of malaria parasites". [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1012360.s023

Langston, H, Fortes Francisco, A, Doidge, C, Roberts, CH, Khan, AA, Jayawardhana, S, Taylor, MC, Kelly, JM and Lewis, MD (2024). Source files for 3D printed hamster anaesthesia delivery nosecone. [Data Collection]. PLOS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0012278.s002

Langston, H, Fortes Francisco, A, Doidge, C, Roberts, CH, Khan, AA, Jayawardhana, S, Taylor, MC, Kelly, JM and Lewis, MD (2024). Source data for: "Dynamics of Trypanosoma cruzi infection in hamsters and novel association with progressive motor dysfunction". [Data Collection]. PLOS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0012278.s003

Lehri, B, Navoly, G, Willcocks, S, Huong, L and Stabler, RA (2022). Campylobacter coli strain, whole genome shotgun sequencing project. [Data Collection]. National Center for Biotechnology Information. https://www.ncbi.nlm.nih.gov/nuccore/JAKGTW000000000

Ling, DB, Nguyen, W, Looker, O, Razook, Z, McCann, K, Barry, AE, Scheurer, C, Wittlin, S, Famodimu, MT, Delves, MJ, Bullen, HE, Crabb, BS, Sleebs, BE and Gilson, PR (2023). A Pyridyl-Furan Series Developed from the Open Global Health Library Block Red Blood Cell Invasion and Protein Trafficking in Plasmodium falciparum through Potential Inhibition of the Parasite’s PI4KIIIB Enzyme. [Data Collection]. ACS Publications. https://doi.org/10.1021/acsinfecdis.3c00138.s001

London School of Hygiene & Tropical Medicine (2022). CDC50 interacting partners of Plasmodium falcipraum. [Data Collection]. PRIDE: PRoteomic IDEntifications Database. https://www.ebi.ac.uk/pride/archive/projects/PXD033834

London School of Hygiene & Tropical Medicine (2023). Data for: "Genomic diversity and antimicrobial resistance in clinical Klebsiella pneumoniae isolates from tertiary hospitals in Southern Ghana". [Data Collection]. NCBI Sequence Read Archive. https://trace.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA1052100

London School of Hygiene & Tropical Medicine (2019). Dual RNA-seq of zebrafish larvae infected with Shigella sonnei. [Data Collection]. NIH National Library of Medicine. https://www.ncbi.nlm.nih.gov/bioproject/PRJNA590152

London School of Hygiene & Tropical Medicine (2022). Environmental detection of vector larvae. [Data Collection]. National Center for Biotechnology Information. https://www.ncbi.nlm.nih.gov/bioproject/PRJEB56414

London School of Hygiene & Tropical Medicine (2024). Impact of commercial gut health interventions on caecal metagenome and broiler performance. [Data Collection]. European Nucleotide Archive. https://www.ebi.ac.uk/ena/browser/view/PRJEB79352

London School of Hygiene & Tropical Medicine (2016). Mus musculus. [Data Collection]. NIH National Library of Medicine. https://www.ncbi.nlm.nih.gov/bioproject/PRJNA348679

London School of Hygiene & Tropical Medicine (2023). Phylogenetic inference of pneumococcal transmission from cross-sectional data, a pilot study. [Data Collection]. European Nucleotide Archive. https://www.ebi.ac.uk/ena/browser/view/PRJEB60532

London School of Hygiene & Tropical Medicine (2010). Proteromonas lacertae. [Data Collection]. NCBI BioProject. https://www.ncbi.nlm.nih.gov/bioproject/50831

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London School of Hygiene & Tropical Medicine (2024). WGS of Ethiopian Anopheles Stephensi. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom.

López-Jiménez, AT, Brokatzky, D, Pillay, K, Williams, T, Özbaykal Güler, G and Mostowy, S (2024). High-content high-resolution microscopy and deep learning assisted analysis reveals host and bacterial heterogeneity during Shigella infection. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.10766626

López-jiménez, AT (2024). ATLopezJimenez/Toolset-high-content-analysis-of-Shigella-infection. [Data Collection]. Github. https://github.com/ATLopezJimenez/Toolset-high-content-analysis-of-Shigella-infection

Maier, AG and Van ooij, C (2022). Table 1 - The role of cholesterol in invasion and growth of malaria parasites. [Data Collection]. Frontiers. https://doi.org/10.3389/fcimb.2022.984049.s001

Matos, GM, Lewis, MD, Talavera-López, C, Yeo, M, Grisard, EC, Messenger, LA, Miles, MA and Andersson, B (2021). Comparative genomic analyses of Trypanosoma cruzi experimental hybrids. [Data Collection]. NCBI BioProject. https://www.ncbi.nlm.nih.gov/bioproject/PRJNA748998

McKenna, A, Ijaz, UZ, Kelly, C, Linton, M, Sloan, WT, Green, BD, Lavery, U, Dorrell, N, Wren, BW, Richmond, A, Corcionivoschi, N and Gundogdu, O (2020). Additional file 11 of Impact of industrial production system parameters on chicken microbiomes: mechanisms to improve performance and reduce Campylobacter. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.12936381.v1

Moss, S (2024). sophiemoss/anopheles_popgen. [Data Collection]. Github. https://github.com/sophiemoss/anopheles_popgen

Mousa, A (2025). AndriaMousa/SP-resistance-protective-efficacy-code: v1.1. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.14988818

Mousa, A (2024). AndriaMousa/chemoprevention-trial-code. [Data Collection]. GitHub. https://github.com/AndriaMousa/chemoprevention-trial-code

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