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Rapid dynamic changes of FL.2 variant: A case report of COVID-19 breakthrough infection
Choga WT, Kurusa Gasenna GK, San JE, Ookame T, Gobe I, Chand M, Phafane B, Seru K, Matshosi P, Zuze B, Ndlovu N, Matsuru T, Maruapula D, Bareng OT, Macheke K, Kuate-Lere L, Tlale L, Lesetedi O, Tau M, Mbulawa MB, Smith-Lawrence P, Matshaba M, Shapiro R, Makhema J, Martin DP, de Oliveira T, Lessells RJ, Lockman S, Gaseitsiwe S, Moyo S.
Epub 138:91-96
The African Human Microbiome Portal: a public web portal of curated metagenomic metadata
Kiran A, Hanachi M, Alsayed N, Fassatoui M, Oduaran OH, Allali I, Maslamoney S, Meintjes A, Zass L, Rocha JD, Kefi R, Benkahla A, Ghedira K, Panji S, Mulder N, Fadlelmola FM, Souiai O.
Database (Oxford) 2024
An Oxford Nanopore Technology-Based Hepatitis B Virus Sequencing Protocol Suitable For Genomic Surveillance Within Clinical Diagnostic Settings
Tshiabuila D, Choga W, James SE, Maponga T, Preiser W, van Zyl G, Moir M, van Wyk S, Giandhari J, Pillay S, Anyaneji UJ, Lessells RJ, Naidoo Y, Sanko TJ, Wilkinson E, Tegally H, Baxter C, Martin DP, de Oliveira T..
medRxiv [Preprint] 2024.01.19.24301519
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Complete genome reconstruction of the global and European regional dispersal history of the lumpy skin disease virus
Van Borm S, Dellicour S, Martin DP, Lemey P, Agianniotaki EI, Chondrokouki ED, Vidanovic D, Vaskovic N, Petroviċ T, Laziċ S, Koleci X, Vodica A, Djadjovski I, Krstevski K, Vandenbussche F, Haegeman A, De Clercq K, Mathijs E.
J Virol 97(11)
Insights into SARS-CoV-2 in Angola during the COVID-19 peak: Molecular epidemiology and genome surveillance
Francisco NM, van Wyk S, Moir M, San JE, Sebastião CS, Tegally H, Xavier J, Maharaj A, Neto Z, Afonso P, Jandondo D, Paixão J, Miranda J, David K, Inglês L, Pereira A, Paulo A, Carralero RR, Freitas HR, Mufinda F, Lutucuta S, Ghafari M, Giovanetti M, Giandhari J, Pillay S, Naidoo Y, Singh L, Tshiabuila D, Martin DP, Chabuka L, Choga W, Wanjohi D, Mwangi S, Pillay Y, Kebede Y, Shumba E, Ondoa P, Baxter C, Wilkinson E, Tessema SK, Katzourakis A, Lessells R, de Oliveira T, Morais J.
Influenza Other Respir Viruses 17(9):e13198
Metagenomics reveals the structure of Mastrevirus-host interaction network within an agro-ecosystem.
Claverie S, Hoareau M, Chéhida SB, Filloux D, Varsani A, Roumagnac P, Martin DP, Lett JM, Lefeuvre P.
Virus Evol 9(2):vead043
Evolution of anelloviruses from a circovirus-like ancestor through gradual augmentation of the jelly-roll capsid protein
Butkovic A, Kraberger S, Smeele Z, Martin DP, Schmidlin K, Fontenele RS, Shero MR, Beltran RS, Kirkham AL, Aleamotu'a M, Burns JM, Koonin EV, Varsani A, Krupovic M.
Virus Evol 9(1):vead035
Rapid dynamic changes of FL.2 variant: A case report of COVID-19 breakthrough infection
Choga WT, Kurusa Gasenna GK, San JE, Ookame T, Gobe I, Chand M, Phafane B, Seru K, Matshosi P, Zuze B, Ndlovu N, Matsuru T, Maruapula D, Bareng OT, Macheke K, Kuate-Lere L, Tlale L, Lesetedi O, Tau M, Mbulawa MB, Smith-Lawrence P, Matshaba M, Shapiro R, Makhema J, Martin DP, de Oliveira T, Lessells RJ, Lockman S, Gaseitsiwe S, Moyo S.
Int J Infect Dis 138:91-96
Grand challenges in bioinformatics education and training
Işık EB, Brazas MD, Schwartz R, Gaeta B, Palagi PM, van Gelder CWG, Suravajhala P, Singh H, Morgan SL, Zahroh H, Ling M, Satagopam VP, McGrath A, Nakai K, Tan TW, Gao G, Mulder N, Schönbach C, Zheng Y, De Las Rivas J, Khan AM.
Nat Biotechnol 41(8):1171-1174
Analysis of Structural Variants Previously Associated With ALS in Europeans Highlights Genomic Architectural Differences in Africans
Monnakgotla NR, Mahungu AC, Heckmann JM, Botha G, Mulder NJ, Wu G, Rampersaud E, Myers J, Van Blitterswijk M, Rademakers R, Taylor JP, Wuu J, Benatar M, Nel M.
Neurol Genet 9(4):e200077
Consent Codes: Maintaining Consent in an Ever-expanding Open Science Ecosystem
Dyke SOM, Connor K, Nembaware V, Munung NS, Reinold K, Kerry G, Mbiyavanga M, Zass L, Moldes M, Das S, Davis JM, De Argila JR, Spalding JD, Evans AC, Mulder N, Karamchandani J.
Neuroinformatics 21(1):89-100
Assessing HLA imputation accuracy in a West African population
Nanjala R, Mbiyavanga M, Hashim S, de Villiers S, Mulder N.
bioRxiv [Preprint] 18(9):e0291437
Developing Clinical Phenotype Data Collection Standards for Research in Africa
Zass L, Johnston K, Benkahla A, Chaouch M, Kumuthini J, Radouani F, Mwita LA, Alsayed N, Allie T, Sathan D, Masamu U, Seuneu Tchamga MS, Tamuhla T, Samtal C, Nembaware V, Gill Z, Ahmed S, Hamdi Y, Fadlelmola F, Tiffin N, Mulder N.
Glob Health Epidemiol Genom 2023:6693323
MetaNovo: An open-source pipeline for probabilistic peptide discovery in complex metaproteomic datasets
Potgieter MG, Nel AJM, Fortuin S, Garnett S, Wendoh JM, Tabb DL, Mulder NJ, Blackburn JM.
PLoS Comput Biol 19(6):e1011163
Performance and accuracy evaluation of reference panels for genotype imputation in sub-Saharan African populations
Sengupta D, Botha G, Meintjes A, Mbiyavanga M; AWI-Gen Study; H3Africa Consortium; Hazelhurst S, Mulder N, Ramsay M, Choudhury A.
Cell Genom 3(6):100332
Rationale, Design, and the Baseline Characteristics of the RHDGen (The Genetics of Rheumatic Heart Disease) Network Study
Machipisa T, Chishala C, Shaboodien G, Zühlke LJ, Muhamed B, Pandie S, de Vries J, Laing N, Joachim A, Daniels R, Ntsekhe M, Hugo-Hamman CT, Gitura B, Ogendo S, Lwabi P, Okello E, Damasceno A, Novela C, Mocumbi AO, Madeira G, Musuku J, Mtaja A, ElSayed A, Alhassan HHM, Bode-Thomas F, Yilgwan C, Amusa G, Nkereuwem E, Mulder N, Ramesar R, Lesosky M, Cordell HJ, Chong M, Keavney B, Paré G, Engel ME; RHDGen Network Consortium.
Circ Genom Precis Med 16(1):e003641
A genome-wide association study identifies distinct variants associated with pulmonary function among European and African ancestries from the UK Biobank
Sinkala M, Elsheikh SSM, Mbiyavanga M, Cullinan J, Mulder NJ.
Commun Biol 6(1):49
Can we design the next generation of digital health communication programs by leveraging the power of artificial intelligence to segment target audiences, bolster impact and deliver differentiated services? A machine learning analysis of survey data from rural India
Bashingwa JJH, Mohan D, Chamberlain S, Scott K, Ummer O, Godfrey A, Mulder N, Moodley D, LeFevre AE.
BMJ Open 13(3):e063354
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Polygenic risk scores for CARDINAL study
Adebamowo CA, Adeyemo A, Ashaye A, Akpa OM, Chikowore T, Choudhury A, Fakim YJ, Fatumo S, Hanchard N, Hauser M, Mitchell B, Mulder N, Ofori-Acquah SF, Owolabi M, Ramsay M, Tayo B, VasanthKumar AB, Zhang Y, Adebamowo SN.
Nat Genet 54(5):527-530
Global priorities for large-scale biomarker-based prospective cohorts
Collins R, Balaconis MK, Brunak S, Chen Z, De Silva M, Gaziano JM, Ginsburg GS, Jha P, Kuri P, Metspalu A, Mulder N, Risch N.
Cell Genom 2(6):100141
Lactic acid from vaginal microbiota enhances cervicovaginal epithelial barrier integrity by promoting tight junction protein expression
Delgado-Diaz DJ, Jesaveluk B, Hayward JA, Tyssen D, Alisoltani A, Potgieter M, Bell L, Ross E, Iranzadeh A, Allali I, Dabee S, Barnabas S, Gamieldien H, Blackburn JM, Mulder N, Smith SB, Edwards VL, Burgener AD, Bekker LG, Ravel J, Passmore JS, Masson L, Hearps AC, Tachedjian G.
Microbiome 10(1):141
Consent Codes: Maintaining Consent in an Ever-expanding Open Science Ecosystem
Dyke SOM, Connor K, Nembaware V, Munung NS, Reinold K, Kerry G, Mbiyavanga M, Zass L, Moldes M, Das S, Davis JM, De Argila JR, Spalding JD, Evans AC, Mulder N, Karamchandani J.
Neuroinformatics 21(1):89-100
The Sickle Cell Disease Ontology: recent development and expansion of the universal sickle cell knowledge representation
Mazandu GK, Hotchkiss J, Nembaware V, Wonkam A, Mulder N.
Database (Oxford) 2022:baac014
Revealing the Mutational Spectrum in Southern Africans With Amyotrophic Lateral Sclerosis
Nel M, Mahungu AC, Monnakgotla N, Botha GR, Mulder NJ, Wu G, Rampersaud E, van Blitterswijk M, Wuu J, Cooley A, Myers J, Rademakers R, Taylor JP, Benatar M, Heckmann JM.
Neurol Genet 8(1):e654
The impact of a direct to beneficiary mobile communication program on reproductive and child health outcomes: a randomised controlled trial in India
LeFevre AE, Shah N, Scott K, Chamberlain S, Ummer O, Bashingwa JJH, Chakraborty A, Godfrey A, Dutt P, Ved R, Mohan D; Kilkari Impact Evaluation Team.
BMJ Glob Health 6(Suppl 5):e008838
Rationale, Design, and the Baseline Characteristics of the RHDGen (The Genetics of Rheumatic Heart Disease) Network Study
Machipisa T, Chishala C, Shaboodien G, Zühlke LJ, Muhamed B, Pandie S, de Vries J, Laing N, Joachim A, Daniels R, Ntsekhe M, Hugo-Hamman CT, Gitura B, Ogendo S, Lwabi P, Okello E, Damasceno A, Novela C, Mocumbi AO, Madeira G, Musuku J, Mtaja A, ElSayed A, Alhassan HHM, Bode-Thomas F, Yilgwan C, Amusa G, Nkereuwem E, Mulder N, Ramesar R, Lesosky M, Cordell HJ, Chong M, Keavney B, Paré G, Engel ME; RHDGen Network Consortium.
Circ Genom Precis Med 16(1):e003641
Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa
Viana R, Moyo S, Amoako DG, Tegally H, Martin DP, .
Nature 603(7902):679-686
The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance
Martin DP, Baxter C, Lambisia AW.
Science 378(6615):eabq5358
Conserved recombination patterns across coronavirus subgenera
de Klerk A, Swanepoel P, Lourens R, Zondo M, Abodunran I, Lytras S, MacLean OA, Robertson D, Kosakovsky Pond SL, Zehr JD, Kumar V, Stanhope MJ, Harkins G, Murrell B, Martin DP.
Virus Evol 8(2):veac054
HIV-1 Evolutionary Dynamics under Nonsuppressive Antiretroviral Therapy
Kemp SA, Charles OJ, Derache A, Smidt W, Martin DP, Iwuji C, Adamson J, Govender K, de Oliveira T, Dabis F, Pillay D, Goldstein RA, Gupta RK.
mBio 13(3):e0026922
Emergence of SARS-CoV-2 Omicron lineages BA.4 and BA.5 in South Africa
Tegally H, Moir M, Everatt J, Giovanetti M, Scheepers C, Wilkinson E, Subramoney K, Makatini Z, Moyo S, Amoako DG, Baxter C, Althaus CL, Anyaneji UJ, Kekana D, Viana R, Giandhari J, Lessells RJ, Maponga T, Maruapula D, Choga W, Matshaba M, Mbulawa MB, Msomi N; NGS-SA consortium; Naidoo Y, Pillay S, Sanko TJ, San JE, Scott L, Singh L, Magini NA, Smith-Lawrence P, Stevens W, Dor G, Tshiabuila D, Wolter N, Preiser W, Treurnicht FK, Venter M, Chiloane G, McIntyre C, O'Toole A, Ruis C, Peacock TP, Roemer C, Kosakovsky Pond SL, Williamson C, Pybus OG, Bhiman JN, Glass A, Martin DP, Jackson B, Rambaut A, Laguda-Akingba O, Gaseitsiwe S, von Gottberg A, de Oliveira T.
Nat Med 28(9):1785-1790
Emergence and phenotypic characterization of the global SARS-CoV-2 C.1.2 lineage
Scheepers C, Everatt J, Amoako DG, Tegally H, Wibmer CK, Mnguni A, Ismail A, Mahlangu B, Lambson BE, Martin DP, Wilkinson E, San JE, Giandhari J, Manamela N, Ntuli N, Kgagudi P, Cele S, Richardson SI, Pillay S, Mohale T, Ramphal U, Naidoo Y, Khumalo ZT, Kwatra G, Gray G, Bekker LG, Madhi SA, Baillie V, Van Voorhis WC, Treurnicht FK, Venter M, Mlisana K, Wolter N, Sigal A, Williamson C, Hsiao NY, Msomi N, Maponga T, Preiser W, Makatini Z, Lessells R, Moore PL, de Oliveira T, von Gottberg A, Bhiman JN.
Nat Commun 13(1):1976
RASCL: Rapid Assessment Of SARS-CoV-2 Clades Through Molecular Sequence Analysis
Lucaci AG, Zehr JD, Shank SD, Bouvier D, Mei H, Nekrutenko A, Martin DP, Kosakovsky Pond SL.
bioRxiv [Preprint] 2022.01.15.476448
RASCL: Rapid Assessment Of SARS-CoV-2 Clades Through Molecular Sequence Analysis
Lucaci AG, Zehr JD, Shank SD, Bouvier D, Mei H, Nekrutenko A, Martin DP, Kosakovsky Pond SL..
bioRxiv [Preprint] 2022.01.15.476448
Neutralisation sensitivity of the SARS-CoV-2 omicron (B.1.1.529) variant: a cross-sectional study
Sheward DJ, Kim C, Ehling RA, Pankow A, Castro Dopico X, Dyrdak R, Martin DP, Reddy ST, Dillner J, Karlsson Hedestam GB, Albert J, Murrell B.
Lancet Infect Dis 22(6):813-820
Detection of SARS-CoV-2 intra-host recombination during superinfection with Alpha and Epsilon variants in New York City
Wertheim JO, Wang JC, Leelawong M, Martin DP, Havens JL, Chowdhury MA, Pekar JE, Amin H, Arroyo A, Awandare GA, Chow HY, Gonzalez E, Luoma E, Morang'a CM, Nekrutenko A, Shank SD, Silver S, Quashie PK, Rakeman JL, Ruiz V, Torian LV, Vasylyeva TI, Kosakovsky Pond SL, Hughes S.
Nat Commun 13(1):3645
SARS-CoV-2 Genetic Diversity and Lineage Dynamics in Egypt during the First 18 Months of the Pandemic
Roshdy WH, Khalifa MK, San JE, Tegally H, Wilkinson E, Showky S, Martin DP, Moir M, Naguib A, Elguindy N, Gomaa MR, Fahim M, Abu Elsood H, Mohsen A, Galal R, Hassany M, Lessells RJ, Al-Karmalawy AA, El-Shesheny R, Kandeil AM, Ali MA, de Oliveira T.
Viruses 14(9):1878
Recent Zoonotic Spillover and Tropism Shift of a Canine Coronavirus Is Associated with Relaxed Selection and Putative Loss of Function in NTD Subdomain of Spike Protein
Zehr JD, Pond SLK, Martin DP, Ceres K, Whittaker GR, Millet JK, Goodman LB, Stanhope MJ.
Viruses 14(5):853
Selection Analysis Identifies Clusters of Unusual Mutational Changes in Omicron Lineage BA.1 That Likely Impact Spike Function
Martin DP, Lytras S, Lucaci AG, Maier W, Grüning B, Shank SD, Weaver S, MacLean OA, Orton RJ, Lemey P, Boni MF, Tegally H, Harkins GW, Scheepers C, Bhiman JN, Everatt J, Amoako DG, San JE, Giandhari J, Sigal A; NGS-SA; Williamson C, Hsiao NY, von Gottberg A, De Klerk A, Shafer RW, Robertson DL, Wilkinson RJ, Sewell BT, Lessells R, Nekrutenko A, Greaney AJ, Starr TN, Bloom JD, Murrell B, Wilkinson E, Gupta RK, de Oliveira T, Kosakovsky Pond SL.
Mol Biol Evol 39(4):msac061
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Integrated molecular characterisation of the MAPK pathways in human cancers reveals pharmacologically vulnerable mutations and gene dependenciesSinkala M, Nkhoma P, Mulder N, Martin DP.Commun Biol 4, 1, 9 |
IHP-PING-generating integrated human protein-protein interaction networks on-the-flyMazandu GK, Hooper C, Opap K, Makinde F, Nembaware V, Thomford NE, Chimusa ER, Wonkam A, Mulder NJ.Brief Bioinform 22(4) |
African Global Representation in Biomedical SciencesMulder N, Zass L, Hamdi Y, Othman H, Panji S, Allali I, Fakim YJ.Annu Rev Biomed Data Sci 4:57-81 |
Hypothalamic-pituitary-adrenal axis suppression in asthma: A glucocorticoid receptor polymorphism may protectAkurugu WA, Van Heerden CJ, Mulder N, Zöllner EW.Pediatr Allergy Immunol 32(2):273-279 |
Ten simple rules for organizing a bioinformatics training course in low- and middle-income countriesMoore B, Carvajal-López P, Chauke PA, Cristancho M, Dominguez Del Angel V, Fernandez-Valverde SL, Ghouila A, Gopalasingam P, Guerfali FZ, Matimba A, Morgan SL, Oliveira G, Ras V, Reyes A, De Las Rivas J, Mulder N.PLoS Comput Biol 17(8) |
H3ABioNet genomic medicine and microbiome data portals hackathon proceedingsFadlelmola FM, Ghedira K, Hamdi Y, Hanachi M, Radouani F, Allali I, Kiran A, Zass L, Alsayed N, Fassatoui M, Samtal C, Ahmed S, Da Rocha J, Chaqsare S, Sallam RM, Chaouch M, Farahat M, Ssekagiri A, Parker Z, Adil M, Turkson M, Benchaalia A, Benkahla A, Panji S, Kassim S, Souiai O, Mulder N.Database (Oxford) 2021 |
Examining the reach and exposure of a mobile phone-based training programme for frontline health workers (ASHAs) in 13 states across IndiaBashingwa JJH, Shah N, Mohan D, Scott K, Chamberlain S, Mulder N, Rahul S, Arora S, Chakraborty A, Ummer O, Ved R, LeFevre AE; Kilkari Impact Evaluation team.BMJ Glob Health 6(Suppl 5) |
Assessing exposure to Kilkari: a big data analysis of a large maternal mobile messaging service across 13 states in IndiaBashingwa JJH, Mohan D, Chamberlain S, Arora S, Mendiratta J, Rahul S, Chauhan V, Scott K, Shah N, Ummer O, Ved R, Mulder N, LeFevre AE; Kilkari Impact Evaluation Team.BMJ Glob Health 6(Suppl 5) |
Reviewing and assessing existing meta-analysis models and toolsMakinde FL, Tchamga MSS, Jafali J, Fatumo S, Chimusa ER, Mulder N, Mazandu GK.Brief Bioinform bbab324 |
Author Correction: High-depth African genomes inform human migration and healthChoudhury A, Aron S, Botigué LR, Sengupta D, Botha G, Bensellak T, Wells G, Kumuthini J, Shriner D, Fakim YJ, Ghoorah AW, Dareng E, Odia T, Falola O, Adebiyi E, Hazelhurst S, Mazandu G, Nyangiri OA, Mbiyavanga M, Benkahla A, Kassim SK, Mulder N, Adebamowo SN, Chimusa ER, Muzny D, Metcalf G, Gibbs RA; TrypanoGEN Research Group, Rotimi C, Ramsay M; H3Africa Consortium, Adeyemo AA, Lombard Z, Hanchard NA.Erratum for: Nature 586(7831):741-748 |
Human OMICs and Computational Biology Research in Africa: Current Challenges and ProspectsHamdi Y, Zass L, Othman H, Radouani F, Allali I, Hanachi M, Okeke CJ, Chaouch M, Tendwa MB, Samtal C, Mohamed Sallam R, Alsayed N, Turkson M, Ahmed S, Benkahla A, Romdhane L, Souiai O, Tastan Bishop Ö, Ghedira K, Mohamed Fadlelmola F, Mulder N, Kamal Kassim S.OMICS 213-233 |
SMS feedback system as a quality assurance mechanism: experience from a household survey in rural IndiaShah N, Ummer O, Scott K, Bashingwa JJH, Penugonda N, Chakraborty A, Sahore A, Mohan D, LeFevre AE; Kilkari Impact Evaluation Team.BMJ Glob Health 6(Suppl 5) |
Data Management Plans in the genomics research revolution of Africa: Challenges and recommendationsFadlelmola FM, Zass L, Chaouch M, Samtal C, Ras V, Kumuthini J, Panji S, Mulder N.J Biomed Inform 122:103900 |
Using a multiple-delivery-mode training approach to develop local capacity and infrastructure for advanced bioinformatics in AfricaRas V, Botha G, Aron S, Lennard K, Allali I, Claassen-Weitz S, Mwaikono KS, Kennedy D, Holmes JR, Rendon G, Panji S, Fields CJ, Mulder N.PLoS Comput Biol 17(2) |
Ensuring best practice in genomics education and evaluation: reporting item standards for education and its evaluation in genomics (RISE2 Genomics)Nisselle A, Janinski M, Martyn M, McClaren B, Kaunein N; Reporting Item Standards for Education and its Evaluation in Genomics Expert Group, Barlow-Stewart K, Belcher A, Bernat JA, Best S, Bishop M, Carroll JC, Cornel M, Dissanayake VHW, Dodds A, Dunlop K, Garg G, Gear R, Graves D, Knight K, Korf B, Kumar D, Laurino M, Ma A, Maguire J, Mallett A, McCarthy M, McEwen A, Mulder N, Patel C, Quinlan C, Reed K, Riggs ER, Sinnerbrink I, Slavotinek A, Suppiah V, Terrill B, Tobias ES, Tonkin E, Trumble S, Wessels TM, Metcalfe S, Jordan H, Gaff C.Genet Med PMID: 33824503 |
Does exposure to health information through mobile phones increase immunisation knowledge, completeness and timeliness in rural India?Chakraborty A, Mohan D, Scott K, Sahore A, Shah N, Kumar N, Ummer O, Bashingwa JJH, Chamberlain S, Dutt P, Godfrey A, LeFevre AE; Kilkari Impact Evaluation Team.BMJ Glob Health 6(Suppl 5) |
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ANIMA: Association network integration for multiscale analysisDeffur A, Wilkinson RJ, Mayosi BM, Mulder NM.Wellcome Open Res 3:27 |
Evolutionary analyses of base-pairing interactions in DNA and RNA secondary structuresGolden M, Murrell B, Martin D, Pybus OG, Hein J.Mol Biol Evol 37, 2, 576-592 |
Integrated molecular characterisation of the MAPK pathways in human cancers reveals pharmacologically vulnerable mutations and gene dependenciesSinkala M, Nkhoma P, Mulder N, Martin DP.Journal Details |
Genome-wide association study of brain connectivity changes for Alzheimer's diseaseElsheikh SSM, Chimusa ER, Mulder NJ, Crimi A.Sci Rep 10, 1, 1433 |
Symptom evolution following the emergence of maize streak virusMonjane AL, Dellicour S, Hartnady P, Oyeniran KA, Owor BE, Bezeidenhout M, Linderme D, Syed RA, Donaldson L, Murray S, Rybicki EP, Kvarnheden A, Yazdkhasti E, Lefeuvre P, Froissart R, Roumagnac P, Shepherd DN, Harkins GW, Suchard MA, Lemey P, Varsani A, Martin DP.Elife [ePub ahead of print] |
[Preprint] BiGen: integrative clinical and brain-imaging genetics analysis using structural equation modelElsheikh SSM, Chimusa ER, Crimi A, Mulder NJ.BioRxiv |
Machine learning and network analyses reveal disease subtypes of pancreatic cancer and their molecular characteristicsSinkala M, Mulder N, Martin D.Sci Rep 10, 1, 1212 |
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A broad survey of DNA sequence data simulation toolsAlosaimi S, Bandiang A, van Biljon N, Awany D, Thami PK, Tchamga MSS, Kiran A, Messaoud O, Hassan RIM, Mugo J, Ahmed A, Bope CD, Allali I, Mazandu GK, Mulder NJ, Chimusa ER.Brief Funct Genomics [ePub ahead of print] |
Advancing the international data science workforce through shared training and educationVan Horn J, Abe S, Ambite JL, Attwood TK, Beard N, Bellis L, Bhattrai A, Bui A, Burns G, Fierro L, Gordon J, Grethe J, Kamdar J, Lei X, Lerman K, McGrath A, Mulder N, O'Driscoll C, Stewart C, Tyagi S.F1000Research 8, 251 [version 1] |
A framework for tiered informed consent for health genomic research in AfricaNembaware V, Johnston K, Diallo AA, Kotze MJ, Matimba A, Moodley K, Tangwa GB, Torrorey-Sawe R, Tiffin N.Nat Genet [ePub ahead of print] |
Another night at the museum: searching for traces of plant viruses using the virion-associated nucleic acid metagenomics approachJulian C, Filloux D, Rieux A, Lefeuvre P, Lett J-M, Becker N, Gagnevin L, Trinder-Smith TH., Hartnady P, Martin DP, Roumagnac P.In: Livre des résumés des 17 ème Rencontres de virologie végétale. INRA, CIRAD, CNRS, SFP, SFV. Aussois: INRA, Résumé, Page 80. Rencontres de Virologie Végétale (RVV 2019) 17, Aussois, France. |
Bacterial pan-genomicsIranzadeh A, Mulder NJ. |
Building infrastructure for African human genomic data managementParker Z, Maslamoney S, Meintjes A, Botha G, Panji S, Hazelhurst S, Mulder N.Data Science Journal 18, 47 |
Data centre profile: the provincial health data centre of the Western Cape Province, South AfricaBoulle A, Heekes A, Tiffin N, Smith M, Mutemaringa T, Zinyakatira N, Phelanyane F, Pienaar C, Bud-diga K, Coetzee E, van Rooyen R, Dyers R, Fredericks N, Loff A, Shand L, Moodley M, de Vega I, Vallabhjee K.International Journal of Population Data Science 4, 2, 6 |
Description of the diversity and structure of mastrevirus communities at the scale of an agrosystem in La Réunion based on a metagenomic approachClaverie S, Scussel S, Hoareau MM, Hascoat J, Lebreton G, Grondin M, Filloux D, Roumagnac P, Martin DP, Lett J-M, Lefeuvre P.In: Livre des résumés des 17 ème Rencontres de virologie végétale. INRA, CIRAD, CNRS, SFP, SFV. Aussois: INRA, Résumé, Page 48. Rencontres de Virologie Végétale (RVV 2019) 17, Aussois, France. |
Emergence of southern rice black-streaked dwarf virus in the centuries-old Chinese Yuanyang agrosystem of rice landracesAlonso P, Gladieux P, Moubset O, Shih P-J, Mournet P, Frouin J, Blondin L, Ferdinand R, Fernandez E, Julian C, Filloux D, Adreit H, Fournier E, Ducasse A, Grosbois V, Morel J-B, Huang H, Jin B, He X, Martin DP, Verniere C, Roumagnac P.Viruses 11, 11, 985 |
Ethical and practical issues to consider in the governance of genomic and human research data and data sharing in South Africa: a meeting reportStaunton C, Adams R, Dove ES, Harriman N, Horn L, Labuschaigne M, Mulder N, Olckers A, Pope A, Ramsay M, Swanepoel C, Ni Loideain N, De Vries J.JAAS Open Res 2:15 [version 1; peer review: awaiting peer review] |
Evidence for both intermittent and persistent compartmentalization of HIV-1 in the female genital tractMabvakure BM, Lambson BE, Ramdayal K, Masson L, Kitchin D, Allam M, Karim SA, Williamson C, Passmore JA, Martin DP, Scheepers C, Moore PL, Harkins GW, Morris L.J Virol JVI.00311-19 [ePub ahead of print] |
Evolution and ecology of plant virusesLefeuvre P, Martin DP, Elena SF, Shepherd DN, Roumagnac P, Varsani A.Nat Rev Microbiol [ePub ahead of print] |
Evolutionary dynamics of ten novel Gamma-PVs: insights from phylogenetic incongruence, recombination and phylodynamic analysesMurahwa AT, Nindo F, Onywera H, Meiring TL, Martin DP, Williamson A-L.BMC Genomics 20, 1, 368 |
Exploring the diversity of Poaceae-infecting mastreviruses on Reunion Island using a viral metagenomics-based approachClaverie S, Ouattara A, Hoareau M, Filloux D, Varsani A, Roumagnac P, Martin DP, Lett JM, Lefeuvre P.Sci Rep 3, 9, 1, 12716 |
FRANC: a unified framework for multi-way local ancestry deconvolution with high density SNP dataGeza E, Mulder NJ, Chimusa ER, Mazandu GK.Brief Bioinform bbz117 |
GenGraph: a python module for the simple generation and manipulation of genome graphsAmbler JM, Mulaudzi S, Mulder N.BMC Bioinformatics 20, 1, 519 |
Global geographical distribution of capulavirusesGalzi S, Filloux D, Richet C, Julian C, Ferdinand R, Davoodi Z, Bejerman N, Kumari SG, Chatzivassiliou EK, Fiallo-Olivé E, Navas-Castillo J, Susi H, Laine A-L, Varsani A, Harkins GW, Martin DP, Roumagnac P.In: Livre des résumés des 17 ème Rencontres de virologie végétale. INRA, CIRAD, CNRS, SFP, SFV. Aussois: INRA, Résumé, Page 101. Rencontres de Virologie Végétale (RVV 2019) 17, Aussois, France. |
Host and microbiome genome-wide association studies: current state and challengesAwany D, Allali I, Dalvie S, Hemmings S, Mwaikono KS, Thomford NE, Gomez A, Mulder N, Chimusa ER.Front Genet 9, 637 |
How to use relevant data for maximal benefit with minimal risk: digital health data governance to protect vulnerable populations in low income and middle-income countriesTiffin N, George A, LeFevre AE.BMJ Glob Health 4, e001395 |
Lenses and levels: the why, what and how of measuring health system drivers of women's, children's and adolescents' health with a governance focusGeorge A, LeFevre AE, Jacobs T, Kinney M, Buse K, Chopra M, Daelmans B, Haakenstad A, Huicho L, Khosla R, Rasanathan K, Sanders D, Singh NS, Tiffin N, Ved R, Zaidi SA, Schneider H.BMJ Glob Health 4 (Suppl 4), e001316 |
Leveraging crowdsourcing to accelerate global health solutionsDavis S, Button-Simons K, Bensellak T, Ahsen EM, Checkley L, Foster GJ, Su X, Moussa A, Mapiye D, Khoo SK, Nosten F, Anderson TJC, Vendrely K, Bletz J, Yu T, Panji S, Ghouila A, Mulder N, Norman T, Kern S, Meyer P, Stolovitzky G, Ferdig MT, Siwo GH.Nat Biotechnol [ePub ahead of print] |
Metabolic gene alterations impact the clinical aggressiveness and drug responses of 32 human cancersSinkala M, Mulder N, Martin DP.Commun Biol 2, 14 |
Multi-stage association analysis of glioblastoma gene expressions with texture and spatial patternsElsheikh SSM, Bakas S, Mulder NJ, Chimusa ER, Davatzikos C, Crimi A. |
Nanopore-based detection and characterization of yam virusesFilloux D, Fernandez E, Loire E, Claude L, Galzi S, Candresse T, Winter S, Jeeva ML, Makeshkumar T, Martin DP, Roumagnac P.Sci Rep 8, 1, 17879 |
Night at the museum: Contribution of small RNA from historical herbarium specimens in the reconstruction of evolutionary histories of geminivirusesLett J-M, Scussel S, Campos P, Filloux D, Roumagnac P, Harkins GW, Martin DP, Roumagnac P, Lefeuvre P, Rieux A, Becker N.In: Livre des résumés des 17 ème Rencontres de virologie végétale. INRA, CIRAD, CNRS, SFP, SFV. Aussois: INRA, Résumé, Page 52. Rencontres de Virologie Végétale (RVV 2019) 17, Aussois, France. |
Novel circular DNA viruses associated with Apiaceae and Poaceae from South Africa and New ZealandRichet C, Kraberger S, Filloux D, Bernardo P, Harkins GW, Martin DP, Roumagnac P, Varsani A.Arch Virol 164, 1, 237-242 |
Partner HIV serostatus impacts viral load, genital HIV shedding and immune activation in HIV-infected individualsJaumdally SZ, Liebenberg LJP, Gumbi PP, Little F, Jaspan HB, Gamieldien H, Tiemessen CT, Coetzee D, Martin DP, Williamson C, Williamson AL, Passmore JS.J Acquir Immune Defic Syndr [ePub ahead of print] |
Pervasive tertiary structure in the dengue virus RNA genomeDethoff EA, Boerneke MA, Gokhale NS, Muhire BM, Martin DP, Sacco MT, McFadden MJ, Weinstein JB, Messer WB, Horner SM, Weeks KM.Proc Natl Acad Sci USA 115, 45, 11513-11518 |
Potential risks and solutions for sharing genome summary data from African populationsTiffin N.BMC Med Genomics 12, 1, 152 |
Proposed guideline for minimum information stroke research and clinical data reportingKumuthini J, Zass L, Chaouch M, Thompson M, Olowoyo P, Mbiyavanga M, Moyinoluwalogo F, Wells G, Nembaware V, Mulder NJ, Owolabi M, H3ABioNet Consortium’s Data and Standard Working Group as members of the H3Africa Consortium.Data Science Journal 18, 1, 26 |
Proposed minimum information guideline for kidney disease-research and clinical data reporting: a cross-sectional studyKumuthini J, van Woerden C, Mallett A, Zass L, Chaouch M, Thompson M, Johnston K, Mbiyavanga M, Baichoo S, Mungloo-Dilmohamud Z, Patel C, Mulder N.BMJ Open 9, 11, e029539 |
Ten simple rules for organizing a webinar seriesFadlelmola FM, Panji S, Ahmed AE, Ghouila A, Akurugu WA, Entfellner J-BD, Souiai O, Mulder N, H3ABioNet Research working group as members of the H3Africa Consortium.PLoS Comput Biol 15, 4, e1006671 |
The African Genomic Medicine Training Initiative (AGMT): show-casing a community and framework driven genomic medicine training for nurses in AfricaMulder N, Nembaware VP, The African Genomic Medicine Training Initiative.Front Genet [Provisionally accepted] |
The diagnosis of tuberculous meningitis in adults and adolescents: protocol for a systematic review and individual patient data meta-analysis to inform a multivariable prediction modelBoyles T, Stadelman A, Ellis J, Cresswell F, Lutje V, Wasserman S, Tiffin N, Wilkinson R.Wellcome Open Res 4, 19 [version 1; peer review: 1 approved, 1 approved with reservations] |
The effects of add-on corticosteroids on renal outcomes in patients with biopsy proven HIV associated nephropathy: a single centre study from South AfricaWearne N, Swanepoel CR, Duffield MS, Davidson BJ, Manning K, Tiffin N, Boulle A, Rayner BL, Naidu P, Okpechi IG.BMC Nephrol 20, 1, 44 |
The H3ABioNet helpdesk: an online bioinformatics resource, enhancing Africa's capacity for genomics researchKumuthini J, Zass L, Panji S, Salifu SP, Kayondo JK, Nembaware V, Mbiyavanga M, Olabode A, Kishk A, Wells G, Mulder NJ as members of the Sustainability and Outreach Work Package of the H3ABioNet Consortium.BMC Bioinformatics 20, 1, 741 |
The hearing impairment ontology: a tool for unifying hearing impairment knowledge to enhance collaborative researchHotchkiss J, Manyisa N, Adadey SM, Oluwole OG, Wonkam E, Mnika K, Yalcouye A, Nembaware V, Haendel M, Vasilevsky N, Mulder NJ, Jupp S, Wonkam A, Mazandu GK.Genes 10, 12, pii: E960 |
The Westward journey of alfalfa leaf curl virusDavoodi Z, Bejerman N, Richet C, Filloux D, Kumari SG, Chatzivassiliou EK, Galzi S, Julian C, Samarfard S, Trucco V, Giolitti F, Fiallo-Olivé E, Navas-Castillo J, Asaad N, Moukahel AR, Hijazi J, Mghandef S, Heydarnejad J, Massumi H, Varsani A, Dietzgen RG, Harkins GW, Martin DP, Roumagnac P.Viruses 10, 10, E542 |
Use of big data and machine learning methods in the monitoring and evaluation of digital health programs in India: an exploratory protocolsMohan D, Bashingwa JJH, Dane P, Chamberlain S, Tiffin N, Lefevre A.JMIR Res Protoc 8, 5, e11456 |
Using whole genome sequencing in an African subphenotype of myasthenia gravis to generate a pathogenetic hypothesisNel M, Mulder N, Europa TA, Heckmann JM.Front Genet 10, 136 |
Vaginal microbiota varies by geographical location in South African womenLennard K, Dabee S, Barnabas SL, Havyarimana E, Blakney A, Jaumdally SZ, Botha G, Mkhize NN, Bekker L, Lewis DA, Gray G, Mulder N, Passmore JS, Jaspan HB.South African Journal for Science and Technology |
[Preprint] crAssphage abundance and genomic selective pressure correlate with altered bacterial abundance in the fecal microbiota of South African mother-infant dyadsBrown BP, Wendoh J, Chopera D, Havyarimana E, Jaumdally S, Nyangahu DD, Gray CM, Martin DP, Varsani A, Jaspan HB.BioRxiv |
[Preprint] Development and implementation of the Sickle Cell Disease OntologyMulder N, Wonkam A, Sickle Cell Disease Ontology Working Group.Preprints with The Lancet |
[Preprint] MetaNovo: a probabilistic approach to peptide and polymorphism discovery in complex mass spectrometry datasetsPotgieter T, Nel AJ, Tabb DL, Fortuin S, Garnett S, Blackburn J, Mulder N.BioRxiv |
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Evolutionary analyses of base-pairing interactions in DNA and RNA secondary structuresGolden M, Murrell B, Martin D, Pybus OG, Hein J.Mol Biol Evol37, 2, 576-592 |
Genome-wide association study of brain connectivity changes for Alzheimer's diseaseElsheikh SSM, Chimusa ER, Mulder NJ, Crimi A.Sci Rep 10, 1, 1433 |
Symptom evolution following the emergence of maize streak virusMonjane AL, Dellicour S, Hartnady P, Oyeniran KA, Owor BE, Bezeidenhout M, Linderme D, Syed RA, Donaldson L, Murray S, Rybicki EP, Kvarnheden A, Yazdkhasti E, Lefeuvre P, Froissart R, Roumagnac P, Shepherd DN, Harkins GW, Suchard MA, Lemey P, Varsani A, Martin DP.Elife [ePub ahead of print] |
[Preprint] BiGen: integrative clinical and brain-imaging genetics analysis using structural equation modelElsheikh SSM, Chimusa ER, Crimi A, Mulder NJ.BioRxiv |
Machine learning and network analyses reveal disease subtypes of pancreatic cancer and their molecular characteristicsSinkala M, Mulder N, Martin D.Sci Rep 10, 1, 1212 |
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A broad survey of DNA sequence data simulation toolsAlosaimi S, Bandiang A, van Biljon N, Awany D, Thami PK, Tchamga MSS, Kiran A, Messaoud O, Hassan RIM, Mugo J, Ahmed A, Bope CD, Allali I, Mazandu GK, Mulder NJ, Chimusa ER.Brief Funct Genomics [ePub ahead of print] |
Advancing the international data science workforce through shared training and educationVan Horn J, Abe S, Ambite JL, Attwood TK, Beard N, Bellis L, Bhattrai A, Bui A, Burns G, Fierro L, Gordon J, Grethe J, Kamdar J, Lei X, Lerman K, McGrath A, Mulder N, O'Driscoll C, Stewart C, Tyagi S.F1000Research 8, 251 [version 1] |
A framework for tiered informed consent for health genomic research in AfricaNembaware V, Johnston K, Diallo AA, Kotze MJ, Matimba A, Moodley K, Tangwa GB, Torrorey-Sawe R, Tiffin N.Nat Genet [ePub ahead of print] |
Another night at the museum: searching for traces of plant viruses using the virion-associated nucleic acid metagenomics approachJulian C, Filloux D, Rieux A, Lefeuvre P, Lett J-M, Becker N, Gagnevin L, Trinder-Smith TH., Hartnady P, Martin DP, Roumagnac P.In: Livre des résumés des 17 ème Rencontres de virologie végétale. INRA, CIRAD, CNRS, SFP, SFV. Aussois: INRA, Résumé, Page 80. Rencontres de Virologie Végétale (RVV 2019) 17, Aussois, France. |
Bacterial pan-genomicsIranzadeh A, Mulder NJ. |
Building infrastructure for African human genomic data managementParker Z, Maslamoney S, Meintjes A, Botha G, Panji S, Hazelhurst S, Mulder N.Data Science Journal 18, 47 |
Data centre profile: the provincial health data centre of the Western Cape Province, South AfricaBoulle A, Heekes A, Tiffin N, Smith M, Mutemaringa T, Zinyakatira N, Phelanyane F, Pienaar C, Bud-diga K, Coetzee E, van Rooyen R, Dyers R, Fredericks N, Loff A, Shand L, Moodley M, de Vega I, Vallabhjee K.International Journal of Population Data Science 4, 2, 6 |
Description of the diversity and structure of mastrevirus communities at the scale of an agrosystem in La Réunion based on a metagenomic approachClaverie S, Scussel S, Hoareau MM, Hascoat J, Lebreton G, Grondin M, Filloux D, Roumagnac P, Martin DP, Lett J-M, Lefeuvre P.In: Livre des résumés des 17 ème Rencontres de virologie végétale. INRA, CIRAD, CNRS, SFP, SFV. Aussois: INRA, Résumé, Page 48. Rencontres de Virologie Végétale (RVV 2019) 17, Aussois, France. |
Emergence of southern rice black-streaked dwarf virus in the centuries-old Chinese Yuanyang agrosystem of rice landracesAlonso P, Gladieux P, Moubset O, Shih P-J, Mournet P, Frouin J, Blondin L, Ferdinand R, Fernandez E, Julian C, Filloux D, Adreit H, Fournier E, Ducasse A, Grosbois V, Morel J-B, Huang H, Jin B, He X, Martin DP, Verniere C, Roumagnac P.Viruses 11, 11, 985 |
Ethical and practical issues to consider in the governance of genomic and human research data and data sharing in South Africa: a meeting reportStaunton C, Adams R, Dove ES, Harriman N, Horn L, Labuschaigne M, Mulder N, Olckers A, Pope A, Ramsay M, Swanepoel C, Ni Loideain N, De Vries J.JAAS Open Res 2:15 [version 1; peer review: awaiting peer review] |
Evidence for both intermittent and persistent compartmentalization of HIV-1 in the female genital tractMabvakure BM, Lambson BE, Ramdayal K, Masson L, Kitchin D, Allam M, Karim SA, Williamson C, Passmore JA, Martin DP, Scheepers C, Moore PL, Harkins GW, Morris L.J Virol JVI.00311-19 [ePub ahead of print] |
Evolution and ecology of plant virusesLefeuvre P, Martin DP, Elena SF, Shepherd DN, Roumagnac P, Varsani A.Nat Rev Microbiol [ePub ahead of print] |
Evolutionary dynamics of ten novel Gamma-PVs: insights from phylogenetic incongruence, recombination and phylodynamic analysesMurahwa AT, Nindo F, Onywera H, Meiring TL, Martin DP, Williamson A-L.BMC Genomics 20, 1, 368 |
Exploring the diversity of Poaceae-infecting mastreviruses on Reunion Island using a viral metagenomics-based approachClaverie S, Ouattara A, Hoareau M, Filloux D, Varsani A, Roumagnac P, Martin DP, Lett JM, Lefeuvre P.Sci Rep 3, 9, 1, 12716 |
FRANC: a unified framework for multi-way local ancestry deconvolution with high density SNP dataGeza E, Mulder NJ, Chimusa ER, Mazandu GK.Brief Bioinform bbz117 |
GenGraph: a python module for the simple generation and manipulation of genome graphsAmbler JM, Mulaudzi S, Mulder N.BMC Bioinformatics 20, 1, 519 |
Global geographical distribution of capulavirusesGalzi S, Filloux D, Richet C, Julian C, Ferdinand R, Davoodi Z, Bejerman N, Kumari SG, Chatzivassiliou EK, Fiallo-Olivé E, Navas-Castillo J, Susi H, Laine A-L, Varsani A, Harkins GW, Martin DP, Roumagnac P.In: Livre des résumés des 17 ème Rencontres de virologie végétale. INRA, CIRAD, CNRS, SFP, SFV. Aussois: INRA, Résumé, Page 101. Rencontres de Virologie Végétale (RVV 2019) 17, Aussois, France. |
Host and microbiome genome-wide association studies: current state and challengesAwany D, Allali I, Dalvie S, Hemmings S, Mwaikono KS, Thomford NE, Gomez A, Mulder N, Chimusa ER.Front Genet 9, 637 |
How to use relevant data for maximal benefit with minimal risk: digital health data governance to protect vulnerable populations in low income and middle-income countriesTiffin N, George A, LeFevre AE.BMJ Glob Health 4, e001395 |
Lenses and levels: the why, what and how of measuring health system drivers of women's, children's and adolescents' health with a governance focusGeorge A, LeFevre AE, Jacobs T, Kinney M, Buse K, Chopra M, Daelmans B, Haakenstad A, Huicho L, Khosla R, Rasanathan K, Sanders D, Singh NS, Tiffin N, Ved R, Zaidi SA, Schneider H.BMJ Glob Health 4 (Suppl 4), e001316 |
Leveraging crowdsourcing to accelerate global health solutionsDavis S, Button-Simons K, Bensellak T, Ahsen EM, Checkley L, Foster GJ, Su X, Moussa A, Mapiye D, Khoo SK, Nosten F, Anderson TJC, Vendrely K, Bletz J, Yu T, Panji S, Ghouila A, Mulder N, Norman T, Kern S, Meyer P, Stolovitzky G, Ferdig MT, Siwo GH.Nat Biotechnol [ePub ahead of print] |
Metabolic gene alterations impact the clinical aggressiveness and drug responses of 32 human cancersSinkala M, Mulder N, Martin DP.Commun Biol 2, 14 |
Multi-stage association analysis of glioblastoma gene expressions with texture and spatial patternsElsheikh SSM, Bakas S, Mulder NJ, Chimusa ER, Davatzikos C, Crimi A. |
Nanopore-based detection and characterization of yam virusesFilloux D, Fernandez E, Loire E, Claude L, Galzi S, Candresse T, Winter S, Jeeva ML, Makeshkumar T, Martin DP, Roumagnac P.Sci Rep 8, 1, 17879 |
Night at the museum: Contribution of small RNA from historical herbarium specimens in the reconstruction of evolutionary histories of geminivirusesLett J-M, Scussel S, Campos P, Filloux D, Roumagnac P, Harkins GW, Martin DP, Roumagnac P, Lefeuvre P, Rieux A, Becker N.In: Livre des résumés des 17 ème Rencontres de virologie végétale. INRA, CIRAD, CNRS, SFP, SFV. Aussois: INRA, Résumé, Page 52. Rencontres de Virologie Végétale (RVV 2019) 17, Aussois, France. |
Novel circular DNA viruses associated with Apiaceae and Poaceae from South Africa and New ZealandRichet C, Kraberger S, Filloux D, Bernardo P, Harkins GW, Martin DP, Roumagnac P, Varsani A.Arch Virol 164, 1, 237-242 |
Partner HIV serostatus impacts viral load, genital HIV shedding and immune activation in HIV-infected individualsJaumdally SZ, Liebenberg LJP, Gumbi PP, Little F, Jaspan HB, Gamieldien H, Tiemessen CT, Coetzee D, Martin DP, Williamson C, Williamson AL, Passmore JS.J Acquir Immune Defic Syndr [ePub ahead of print] |
Pervasive tertiary structure in the dengue virus RNA genomeDethoff EA, Boerneke MA, Gokhale NS, Muhire BM, Martin DP, Sacco MT, McFadden MJ, Weinstein JB, Messer WB, Horner SM, Weeks KM.Proc Natl Acad Sci USA 115, 45, 11513-11518 |
Potential risks and solutions for sharing genome summary data from African populationsTiffin N.BMC Med Genomics 12, 1, 152 |
Proposed guideline for minimum information stroke research and clinical data reportingKumuthini J, Zass L, Chaouch M, Thompson M, Olowoyo P, Mbiyavanga M, Moyinoluwalogo F, Wells G, Nembaware V, Mulder NJ, Owolabi M, H3ABioNet Consortium’s Data and Standard Working Group as members of the H3Africa Consortium.Data Science Journal 18, 1, 26 |
Proposed minimum information guideline for kidney disease-research and clinical data reporting: a cross-sectional studyKumuthini J, van Woerden C, Mallett A, Zass L, Chaouch M, Thompson M, Johnston K, Mbiyavanga M, Baichoo S, Mungloo-Dilmohamud Z, Patel C, Mulder N.BMJ Open 9, 11, e029539 |
Ten simple rules for organizing a webinar seriesFadlelmola FM, Panji S, Ahmed AE, Ghouila A, Akurugu WA, Entfellner J-BD, Souiai O, Mulder N, H3ABioNet Research working group as members of the H3Africa Consortium.PLoS Comput Biol 15, 4, e1006671 |
The African Genomic Medicine Training Initiative (AGMT): show-casing a community and framework driven genomic medicine training for nurses in AfricaMulder N, Nembaware VP, The African Genomic Medicine Training Initiative.Front Genet [Provisionally accepted] |
The diagnosis of tuberculous meningitis in adults and adolescents: protocol for a systematic review and individual patient data meta-analysis to inform a multivariable prediction modelBoyles T, Stadelman A, Ellis J, Cresswell F, Lutje V, Wasserman S, Tiffin N, Wilkinson R.Wellcome Open Res 4, 19 [version 1; peer review: 1 approved, 1 approved with reservations] |
The effects of add-on corticosteroids on renal outcomes in patients with biopsy proven HIV associated nephropathy: a single centre study from South AfricaWearne N, Swanepoel CR, Duffield MS, Davidson BJ, Manning K, Tiffin N, Boulle A, Rayner BL, Naidu P, Okpechi IG.BMC Nephrol 20, 1, 44 |
The H3ABioNet helpdesk: an online bioinformatics resource, enhancing Africa's capacity for genomics researchKumuthini J, Zass L, Panji S, Salifu SP, Kayondo JK, Nembaware V, Mbiyavanga M, Olabode A, Kishk A, Wells G, Mulder NJ as members of the Sustainability and Outreach Work Package of the H3ABioNet Consortium.BMC Bioinformatics 20, 1, 741 |
The hearing impairment ontology: a tool for unifying hearing impairment knowledge to enhance collaborative researchHotchkiss J, Manyisa N, Adadey SM, Oluwole OG, Wonkam E, Mnika K, Yalcouye A, Nembaware V, Haendel M, Vasilevsky N, Mulder NJ, Jupp S, Wonkam A, Mazandu GK.Genes 10, 12, pii: E960 |
The Westward journey of alfalfa leaf curl virusDavoodi Z, Bejerman N, Richet C, Filloux D, Kumari SG, Chatzivassiliou EK, Galzi S, Julian C, Samarfard S, Trucco V, Giolitti F, Fiallo-Olivé E, Navas-Castillo J, Asaad N, Moukahel AR, Hijazi J, Mghandef S, Heydarnejad J, Massumi H, Varsani A, Dietzgen RG, Harkins GW, Martin DP, Roumagnac P.Viruses 10, 10, E542 |
Use of big data and machine learning methods in the monitoring and evaluation of digital health programs in India: an exploratory protocolsMohan D, Bashingwa JJH, Dane P, Chamberlain S, Tiffin N, Lefevre A.JMIR Res Protoc 8, 5, e11456 |
Using whole genome sequencing in an African subphenotype of myasthenia gravis to generate a pathogenetic hypothesisNel M, Mulder N, Europa TA, Heckmann JM.Front Genet 10, 136 |
Vaginal microbiota varies by geographical location in South African womenLennard K, Dabee S, Barnabas SL, Havyarimana E, Blakney A, Jaumdally SZ, Botha G, Mkhize NN, Bekker L, Lewis DA, Gray G, Mulder N, Passmore JS, Jaspan HB.South African Journal for Science and Technology |
[Preprint] crAssphage abundance and genomic selective pressure correlate with altered bacterial abundance in the fecal microbiota of South African mother-infant dyadsBrown BP, Wendoh J, Chopera D, Havyarimana E, Jaumdally S, Nyangahu DD, Gray CM, Martin DP, Varsani A, Jaspan HB.BioRxiv |
[Preprint] Development and implementation of the Sickle Cell Disease OntologyMulder N, Wonkam A, Sickle Cell Disease Ontology Working Group.Preprints with The Lancet |
[Preprint] MetaNovo: a probabilistic approach to peptide and polymorphism discovery in complex mass spectrometry datasetsPotgieter T, Nel AJ, Tabb DL, Fortuin S, Garnett S, Blackburn J, Mulder N.BioRxiv |
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A common molecular signature of patients with sickle cell disease revealed by microarray meta-analysis and a genome-wide association studyHamda CB, Sangeda R, Mwita L, Meintjes A, Nkya S, Panji S, Mulder N, Guizani-Tabbane L, Benkahla A, Makani J, Ghedira K; H3ABioNet Consortium.PLoS One 6, 13, 7 |
A comprehensive survey of models for dissecting local ancestry deconvolution in human genomeGeza E, Mugo J, Mulder N, Wonkam A, Chimusa ER, Mazandu GK.Brief Bioinform bby044 |
Alphasatellitidae: a new family with two subfamilies for the classification of geminivirus- and nanovirus-associated alphasatellitesBriddon RW, Martin DP, Roumagnac P, Navas-Castillo J, Fiallo-Olivé E, Moriones E, Lett J-M, Zerbini FM, Varsani A.Arch Virol 4, 1, vey015 |
ANIMA: Association network integration for multiscale analysisDeffur A, Wilkinson RJ, Mayosi BM, Mulder N.Wellcome Open Res 3, 27 [version 2; referees: 1 approved, 1 approved with reservations] |
A systems-level analysis of drug-target-disease associations for drug repositioningRutherford KD, Mazandu GK, Mulder NJ.Brief Funct Genomics 17, 34–41 |
C-reactive protein and procalcitonin to discriminate between tuberculosis, Pneumocystis jirovecii pneumonia, and bacterial pneumonia in HIV-infected inpatients meeting WHO criteria for seriously ill: a prospective cohort studyMendelson F, Griesel R, Tiffin N, Rangaka M, Boulle A, Mendelson M, Maartens G.BMC Infect Dis 18, 1, 399 |
Disruption of maternal gut microbiota during gestation alters offspring microbiota and immunityNyangahu DD, Lennard KS, Brown BP, Darby MG, Wendoh JM, Havyarimana E, Smith P, Butcher J, Stintzi A, Mulder NJ, Horsnell W, Jaspan HB.Microbiome 6, 124 |
Environmental and social factors impacting on epidemic and endemic tuberculosis: a modelling analysisIssarow CM, Mulder N, Wood R.R Soc Open Sci 5, 170726 |
Feeding-related gut microbial composition associates with peripheral T cell activation and mucosal gene expression in African infantsWood LF, Brown BP, Lennard K, Karaoz U, Havyarimana E, Passmore JS, Hesseling AC, Edlefsen PT, Kuhn L, Mulder N, Brodie EL, Sodora DL, Jaspan HB.Clin Infect Dis [ePub ahead of print] |
From spatial metagenomics to molecular characterization of plant viruses: a geminivirus case study. In: Malmstrom CM (eds) Advances in Virus Research volume 101, pages 55-83 [Book]Claverie S, Bernardo P, Kraberger S, Hartnady P, Lefeuvre P, Lett JM, Galzi S, Filloux D, Harkins GW, Varsani A, Martin DP, Roumagnac P.Elsevier Inc. |
H3Africa: current perspectivesMulder N, Abimiku A, Adebamowo SN, De Vries J, Matimba A, Olowoyo P, Ramsay M, Skelton M, Stein D, on behalf of the members of the H3Africa Consortium.Pharmgenomics Pers Med 11, 59-66 |
Hackathons as a means of accelerating scientific discoveries and knowledge transferGhouila A, Siwo GH, Entfellner JD, Panji S, Button-Simons KA, Davis SZ, Fadlelmola FM, DREAM of Malaria Hackathon Participants, Ferdig MT, Mulder NJ.Genome Res 28, 759-765 |
HIV-exposure, early life feeding practices and delivery mode impacts on faecal bacterial profiles in a South African birth cohortClaassen-Weitz S, Gardner-Lubbe S, Nicol P, Botha G, Mounaud S, Shankar J, Nierman WC, Mulder N, Budree S, Zar HJ, Nicol MP, Kaba M.Sci Rep 86, e00410-17 |
Improved treatment outcomes with bedaquiline when substituted for second-line injectable agents in multidrug resistant tuberculosis: a retrospective cohort studyZhao Y, Fox T, Manning K, Stewart A, Tiffin N, Khomo N, Leslie J, Boulle A, Mudaly V, Kock Y, Meintjes G, Wasserman S.Clin Infect Dis [Epub ahead of print] |
Increase in taxonomic assignment efficiency of viral reads in metagenomic studiesFrançois S, Filloux D, Frayssinet M, Roumagnac P, Martin DP, Ogliastro M, Froissart R.Virus Res 244, 230-234 |
Integrative landscape of dysregulated signaling pathways of clinically distinct pancreatic cancer subtypesSinkala M, Mulder N, Martin DP.Oncotarget 9:29123-2913986, e00410-17 |
Microbial composition predicts genital tract inflammation and persistent bacterial vaginosis in South African adolescent femalesLennard K, Dabee S, Barnabas SL, Havyarimana E, Blakney A, Jaumdally SZ, Botha G, Mkhize NN, Bekker L-G, Lewis DA, Gray G, Mulder N, Passmore J-AS, Jaspan HB.Infect Immun 86, e00410-17 |
Molecular characterization of faba bean necrotic yellows viruses in TunisiaSimona Kraberger S, Kumari SG, Najar A, Stainton D, Martin DP, Varsani A.Arch Virol 163, 3, 687–694 |
Nanovirus-alphasatellite complex identified in Vicia cracca in the Rhone delta region of FranceGallet R, Kraberger S, Filloux D, Galzi S, Fontes H, Martin DP, Varsani A, Roumagnac P.Arch Virol 163, 3, 695-700 |
New isolates of sweet potato feathery mottle virus and sweet potato virus C: biological and molecular properties, and recombination analysis based on complete genomesMaina S, Barbetti MJ, Martin DP, Edwards OR, Jones RAC.Plant Dis 102, 10, 1899-1914 |
Notes on recombination and reassortment in multipartite/segmented virusesVarsani A, Lefeuvre P, Roumagnac P, Martin D.Curr Opin Virol 33:156-166 |
Organizing and running bioinformatics hackathons within Africa: The H3ABioNet cloud computing experienceAhmed AE, Mpangase PT, Panji S, Baichoo S, Botha G, Fadlelmola FM, Hazelhurst S, Van Heusden P, Jongeneel CV, Joubert F, Mainzer LS, Meintjes A, Armstrong D, Crusoe MR, O'Connor BD, Souilmi Y, Alghali M, Aron S, Bendou H, De Beste E, Mbiyavanga M, Souiai O, Yi L, Zermeno J, Mulder N.AAS Open Res 1:9 [version 1; referees: 3 approved with reservations] |
Passion fruit chlorotic mottle virus: molecular characterization of a new divergent geminivirus in BrazilFontenele RS, Abreu RA, Lamas NS, Alves-Freitas DMT, Vidal AH, Poppiel RR, Melo FL, Lacorte C, Martin DP, Campos MA, A Varsani, Ribeiro SG.Viruses 10, 4, 169 |
Patterns of genomic site inheritance in HIV-1M inter-subtype recombinants delineate the most likely genomic sites of subtype-specific adaptationMarcel Tongo, Tulio de Oliveira, Martin DP.Virus Evol 4, 1, vey015 |
Recombinant goose circoviruses circulating in domesticated and wild geese in PolandStenzel T, Dziewulska D, Muhire BM, Hartnady P, Kraberger S, Martin DP, A Varsani.Viruses 10, 3, 107 |
Relating connectivity changes in brain networks to genetic information in Alzheimer patientsElsheikh S, Chimusa ER, Mulder N, Crimi A.In: 2018 IEEE 15th International Symposium on Biomedical Imaging (ISBI 2018), Pages 1390-1393. |
Self-enrolment antenatal health promotion data as an adjunct to maternal clinical information systems in the Western Cape Province of South AfricaHeekes A, Tiffin N, Dane P, Mutemaringa T, Smith M, Zinyakatira N, Barron P, Seebregts C, Boulle A.BMJ Glob Health 3 (Suppl 2), e000565 |
The development and application of bioinformatics core competencies to improve bioinformatics training and educationMulder N, Schwartz R, Brazas MD, Brooksbank C, Gaeta B, Morgan SL, Pauley MA, Rosenwald A, Rustici G, Sierk M, Warnow T, Welch L. |
Tiered informed consent: respecting autonomy, agency and individuality in AfricaTiffin N.BMJ Glob Health 3, 6, e001249 |
Unravelling the complicated evolutionary and dissemination history of HIV-1M subtype A lineagesTongo M, Harkins GW, Dorfman JR, Billings E, Tovanabutra S, de Oliveira T, Martin DP.Virus Evol 4, 1 |
World management of geminivirusesRojas MR, Macedo MA, Maliano MR, Soto-Aguilar M, Souza JO, Briddon RW, Kenyon L, Rivera Bustamante RF, Zerbini FM, Adkins S, Legg JP, Kvarnheden A, Wintermantel WM, Sudarshana MR, Peterschmitt M, Lapidot M, Martin DP, Moriones E, Inoue-Nagata AK, Gilbertson RL.Annu Rev Phytopathol 25, 56, 637-677 |
[Accepted] The application of nasopharyngeal aspirates to evaluate changes in airway secretions during influenza virus infection in paediatric casesZekeng E-G, Xia D, Armstrong S, Mazandu GK, Moyo NA, Dia N, French N, Cunliffe N, Niang MN, Sunny S, Bingle CD, Carroll M, Digard P, Laws T, Mulder NJ, Stewart JP and Hiscox JA.J Proteome Res |
[Preprint] Change on the fly: using machine learning in the monitoring and evaluation of digital health programs to improve evidence generation and implementation in real timeMohan D, Bashingwa JJH, Dane P, Chamberlain S, Mulder N, Tiffin N, Lefevere A.JMIR Preprints |
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Accessing Biospecimens from the H3Africa ConsortiumBeiswanger CM, Abimiku A, Carstens N, Christoffels A, de Vries J, Duncanson A, du Plessis M, Giovanni M, Littler K, Mulder N, Troyer J, Wideroff L, H3Africa Data and Biospecimen Sharing Organizing Committee.Biopreserv Biobank 15, 2, 95-98 |
A genomic and protein-protein interaction analyses of nonsyndromic hearing impairment in Cameroon using targeted genomic enrichment and massively parallel sequencingLebeko K, Manyisa N, Chimusa ER, Mulder N, Dandara C, Wonkam A.Omics J Integr Biol 21, 90–99 |
A multi-scenario genome-wide medical population genetics simulation frameworkMugo JW, Geza E, Defo J, Elsheikh SSM, Mazandu GK, Mulder NJ, Chimusa ER.Bioinformatics 33, 2995–3002 |
Assessing computational genomics skills: Our experience in the H3ABioNet African bioinformatics networkJongeneel CV, Achinike-Oduaran O, Adebiyi E, Adebiyi M, Adeyemi S, Akanle B, Aron S, Ashano E, Bendou H, Botha G, Chimusa E, Choudhury A, Donthu R, Drnevich J, Falola O, Fields CJ, Hazelhurst S, Hendry L, Isewon I, Khetani RS, Kumuthini J, Kimuda MP, Magosi L, Mainzer LS, Maslamoney S, Mbiyavanga M, Meintjes A, Mugutso D, Mpangase P, Munthali R, Nembaware V, Ndhlovu A, Odia T, Okafor A, Oladipo O, Panji S, Pillay V, Rendon G, Sengupta D, Mulder N.PLoS Comput Biol 13, e1005419 |
Capulavirus and Grablovirus: two new genera in the family GeminiviridaeVarsani A, Roumagnac P, Fuchs M, Navas-Castillo J, Moriones E, Idris A, Briddon RW, Rivera-Bustamante R, Murilo Zerbini F, Martin DP.Arch Virol 162, 6, 1819-1831 |
Chinks in the armor of the HIV-1 Envelope glycan shield: Implications for immune escape from anti-glycan broadly neutralizing antibodiesMoyo T, Ferreira RC, Davids R, Sonday Z, Moore PL, Travers SA, Wood NT, Dorfman JR.Virology 501, 12-24 |
Comparative analysis of common regions found in babuviruses and alphasatellite moleculesStainton D, Martin DP, Collings DA, Varsani A.Arch Evol 162, 3, 849-855 |
Complete genome sequences of cowpea polerovirus 1 and cowpea polerovirus 2 infecting cowpea plants in Burkina FasoPalanga E, Martin DP, Galzi S, Zabré J, Bouda Z, Neya JB, Sawadogo M, Traore O, Peterschmitt M, Roumagnac P, Filloux D.Arch Virol 162, 7, 2149-2152 |
Cooperation between strain-specific and broadly neutralizing responses limited viral escape and prolonged the exposure of the broadly neutralizing epitopeAnthony C, York T, Bekker V, Matten D, Selhorst P, Ferreria RC, Garrett NJ, Karim SSA, Morris L, Wood NT, Moore PL, Williamson C.J Virol 91, 18 |
Delineation of the HPV11E6 and HPV18E6 Pathways in Initiating Cellular TransformationMwapagha LM, Tiffin N, Parker MI.Front Oncol 7, 258 |
Designing a course model for distance-based online bioinformatics training in Africa: The H3ABioNet experienceGurwitz KT, Aron S, Panji S, Maslamoney S, Fernandes PL, Judge DP, Ghouila A, Domelevo Entfellner J-B, Guerfali FZ, Saunders C, Mansour Alzohairy A, Salifu SP, Ahmed R, Cloete, R, Kayondo J, Ssemwanga D, Mulder N.PLoS Comput Biol 13, e1005715 |
Detecting and analyzing genetic recombination using RDP4. In: Keith J. (eds) Bioinformatics. Methods in Molecular Biology volume 1525, pages 433-460 [Book]Martin DP, Murrell B, Khoosal A, Muhire B.Humana Press, New York, NY |
Development of bioinformatics infrastructure for genomics researchMulder NJ, Adebiyi E, Adebiyi M, Adeyemi S, Ahmed A, Ahmed R, Akanle B, Alibi M, Armstrong DL, Aron S, Ashano E, Baichoo S, Benkahla A, Brown DK, Chimusa ER, Fadlelmola FM, Falola D, Fatumo S, Ghedira K, Ghouila A, Hazelhurst S, Isewon I, Jung S, Kassim SK, Kayondo JK, Mbiyavanga M, Meintjes A, Mohammed S, Mosaku A, Moussa A, Muhammd M, Mungloo-Dilmohamud Z, Nashiru O, Odia T, Okafor A, Oladipo O, Osamor V, Oyelade J, Sadki K, Salifu SP, Soyemi J, Panji S, Radouani F, Souiai O, Tastan Bishop O.Glob Heart 12, 91–98 |
Development to enable precision medicine in AfricaMulder N.Per Med 14, 6, 467-470 |
First report of Maize yellow mosaic virus infecting maize in Burkina FasoPalanga E, Longué RDS, Koala M, Néya JB, Traoré O, Martin DP, Peterschmitt M, Filloux D, Roumagnac P.New Disease Reports 35, 26 |
Four simple recommendations to encourage best practices in research softwareJimenez RC, Kuzak M, Alhamdoosh M, Barker M, Batut B, Borg M, Capella-Gutierrez S, Chue Hong N, Cook M, Corpas M, Flannery M, Garcia L, Gelpi JL, Gladman S, Goble C, Gonzalez Ferreiro M, Gonzalez-Beltran A, Griffin PC, Gruning B, Hagberg J, Holub P, Hooft R, Ison J, Katz DS, Leskosek B, Lopez Gomez F, Oliveira LJ, Mellor D, Mosbergen R, Mulder N, Perez-Riverol Y, Pergl R, Pichler H, Pope B, Sanz F, Schneider MV, Stodden V, Suchecki R, Svobodova Varekova R, Talvik H-A, Todorov I, Treloar A, Tyagi S, Van Gompel M, Vaughan D, Via A, Wang X, Watson-Haigh NS, Crouch S.F1000Research 6, 876 |
Gene Ontology semantic similarity tools: survey on features and challenges for biological knowledge discoveryMazandu GK, Chimusa ER, Mulder NJ.Brief Bioinform 18, 886–901 |
Genetic diversity and phylogenetic analysis of the ORF5 gene of PRRSV from central ChinaZhang L, Feng Y, Martin DP, Chen J, Ma S, Xia P, Zhang G.Res Vet Sci 115, 226-234 |
Genome sequences of a capulavirus infecting Plantago lanceolata in the Åland archipelago of FinlandSusi H, Laine AL, Filloux D, Kraberger S, Farkas K, Bernardo P, Frilander MJ, Martin DP, Varsani A, Roumagnac P.Arch Virol 162, 7, 2041-2045 |
Genomic research data generation, analysis and sharing – challenges in the African settingMulder N, Adebamowo CA, Adebamowo SN, Adebayo O, Adeleye O, Alibi M, Baichoo S, Benkahla A, Fadlelmola FM, Ghazal H, Ghedira K, Matimba A, Moussa A, Mungloo-Dilmohamud Z, Owolabi MO, Radouani F, Rotimi CN, Stein DJ, Souiai O.Data Science Journal 16, 49 |
Geometagenomics illuminates the impact of agriculture on the distribution and prevalence of plant viruses at the ecosystem scaleBernardo P, Charles-Dominique T, Barakat M, Ortet P, Fernandez E, Filloux D, Hartnady P, Rebelo TA, Cousins SR, Mesleard F, Cohez D, Yavercovski N, Varsani A, Harkins GW, Peterschmitt M, Malmstrom CM, Martin DP, Roumagnac P.ISME J 12, 1, 173-184 |
H3ABioNet: developing sustainable bioinformatics capacity in AfricaAron S, Gurwitz K, Panji S, Mulder N, H3ABioNet Education and Training working group as members of the H3Africa Consortium.EMBnet.journal 23, e886 |
Hoë voorkomskoers van bakteriële vaginose en Chlamydia in ’n lae-inkomste, hoë-bevolkingsdigtheid gemeenskap in Kaapstad[High rates of bacterial vaginosis and chlamydia in a low-income, high-population-density community in Cape Town]Lennard KS, Dabee S, Barnabas SL, Havyarimana E, Jaumdally SZ, Botha G, Mkhize NN, Bekker L-G, Gray G, Mulder N, Passmore J-A, Jaspan HB.Suid-Afrikaanse Tydskrif vir Natuurwetenskap en Tegnologie 36, 1, a1495. [published in Afrikaans] |
ICTV virus taxonomy profile: geminiviridaeZerbini FM, Briddon RW, Idris A, Martin DP, Moriones E, Navas-Castillo J, Rivera-Bustamante R, Roumagnac P, Varsani A, ICTV Report Consortium.J Gen Virol 98, 2, 131-133 |
Identification of a nanovirus-alphasatellite complex in Sophora alopecuroidesHeydarnejad J, Kamali M, Massumi H, Kvarnheden A, Male MF, Kraberger S, Stainton D, Martin DP, Varsani A.Virus Res 2, 235, 24-32 |
Impact of effective contact rate and post treatment immune status on population tuberculosis infection and disease using a mathematical modelIssarow CM, Mulder N, Wood R.F1000Research 6, 1817 |
Large-scale data-driven integrative framework for extracting essential targets and processes from disease-associated gene data setsMazandu GK, Chimusa ER, Rutherford K, Zekeng E-G, Gebremariam ZZ, Onifade MY, Mulder NJBrief Bioinform [ePub ahead of print] |
Molecular characterization of faba bean necrotic yellows viruses in TunisiaKraberger S, Kumari SG, Najar A, Stainton D, Martin DP, Varsani A.Arch Virol 163, 3, 687-694 |
Molecular diversity, geographic distribution and host range of monocot-infecting mastreviruses in Africa and surrounding islandsKraberger S, Saumtally S, Pande D, Khoodoo MHR, Dhayan S, Dookun-Saumtally A, Shepherd DN, Hartnady P, Atkinson R, Lakay FM, Hanson B, Redhi D, Monjane AL, Windram OP, Walters M, Oluwafemi S, Michel-Lett J, Lefeuvre P, Martin DP, Varsani A.Virus Res 238, 171-178 |
Nanovirus-alphasatellite complex identified in Vicia cracca in the Rhône delta region of FranceGallet R, Kraberger S, Filloux D, Galzi S, Fontes H, Martin DP, Varsani A, Roumagnac P.Arch Virol 163, 3, 695-700 |
Novel mastreviruses identified in Australian wild riceKraberger S, Geering ADW, Walters M, Martin DP, Varsani A.Virus Res 238, 193-197 |
Occurrence of a novel mastrevirus in sugarcane germplasm collections in Florida, Guadeloupe and RéunionBoukari W, Alcalá-Briseño RI, Kraberger S, Fernandez E, Filloux D, Daugrois JH, Comstock JC, Lett JM, Martin DP , Varsani A, Roumagnac P, Polston JE, Rott PC.Virol J 14, 1, 146 |
Recent advances in predicting gene-disease associationsOpap K, Mulder N.F1000Research 6, 578 |
Sickle cell disease: tipping the balance of genomic research to catalyse discoveries in AfricaMakani J, Ofori-Acquah SF, Tluway F, Mulder N, Wonkam A.Lancet Lond Engl 389, 2355–2358 |
Ten simple rules for forming a scientific professional societyGaeta BA, De Las Rivas J, Horton P, Meysman P, Mulder N, Romano P, Welch L.PLoS Comput Biol 13, e1005226 |
The influence of HIV on the evolution of Mycobacterium tuberculosisKoch AS, Brites D, Stucki D, Evans JC, Seldon R, Heekes A, Mulder N, Nicol M, Oni T, Mizrahi V, Warner DF, Parkhill J, Gagneux S, Martin DP, Wilkinson RJ.Mol Biol Evol 34, 1654–1668 |
The role of Kenya in the trans-African spread of maize streak virus strain APande D, Madzokere E, Hartnady P, Kraberger S, Hadfield J, Rosario K, Jäschke A, Monjane AL, Owor BE, Dida MM, Shepherd DN, Martin DP, Varsani A, Harkins GW.Virus Res 232, 69-76 |
Tomato leaf curl New Delhi virus: a widespread bipartite begomovirus in the territory of monopartite begomovirusesZaidi SS, Martin DP, Amin I, Farooq M, Mansoor S.Mol Plant Pathol 18, 7, 901-911 |
Where do HIV-infected adolescents go after transfer? - Tracking transition/transfer of HIV-infected adolescents using linkage of cohort data to a health information system platformDavies MA, Tsondai P, Tiffin N, Eley B, Rabie H, Euvrard J, Orrell C, Prozesky H, Wood R, Cogill D, Haas AD, Sohn AH, Boulle A.J Int AIDS Soc 20(Suppl 3), 21668 |
Whole-genome sequencing for an enhanced understanding of genetic variation among South AfricansChoudhury A, Ramsay M, Hazelhurst S, Aron S, Bardien S, Botha G, Chimusa ER, Christoffels A, Gamieldien J, Sefid-Dashti MJ, Joubert F, Meintjes A, Mulder N, Ramesar R, Rees J, Scholtz K, Sengupta D, Soodyall H, Venter P, Warnich L, Pepper MS.Nat Commun 8, 2062 |
[Preprint] A global perspective on bioinformatics training needsBrazas MD, Brooksbank C, Jimenez RC, Blackford S, Palagi PM, De Las Rivas J, Ouellette BFF, Kumuthini J, Korpelainen E, Lewitter F, Van Gelder CWG, Mulder N, Corpas M, Schneider MV, Tan TW, Clements D, Davies A, Attwood TK.BioRxiv |
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