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Items: 1 to 50 of 551

1.

Glucose-6-Phosphate Regulates Hepatic Bile Acid Synthesis in Mice.

Hoogerland JA, Lei Y, Wolters JC, de Boer JF, Bos T, Bleeker A, Mulder NL, van Dijk TH, Kuivenhoven JA, Rajas F, Mithieux G, Haeusler RA, Verkade HJ, Bloks VW, Kuipers F, Oosterveer MH.

Hepatology. 2019 May 18. doi: 10.1002/hep.30778. [Epub ahead of print]

PMID:
31102537
2.

Mental health professionals' knowledge, skills and attitudes on domestic violence and abuse in the Netherlands: cross-sectional study.

Ruijne RE, Kamperman AM, Trevillion K, Garofalo C, Jongejan FE, Bogaerts S, Howard LM, Mulder NL.

BJPsych Open. 2019 Mar;5(2):e29. doi: 10.1192/bjo.2019.8.

3.

Ten simple rules for organizing a webinar series.

Fadlelmola FM, Panji S, Ahmed AE, Ghouila A, Akurugu WA, Domelevo Entfellner JB, Souiai O, Mulder N; H3ABioNet Research working group as members of the H3Africa Consortium.

PLoS Comput Biol. 2019 Apr 1;15(4):e1006671. doi: 10.1371/journal.pcbi.1006671. eCollection 2019 Apr. No abstract available. Erratum in: PLoS Comput Biol. 2019 May 8;15(5):e1007048.

4.

Using Whole Genome Sequencing in an African Subphenotype of Myasthenia Gravis to Generate a Pathogenetic Hypothesis.

Nel M, Mulder N, Europa TA, Heckmann JM.

Front Genet. 2019 Mar 1;10:136. doi: 10.3389/fgene.2019.00136. eCollection 2019.

5.

Host and Microbiome Genome-Wide Association Studies: Current State and Challenges.

Awany D, Allali I, Dalvie S, Hemmings S, Mwaikono KS, Thomford NE, Gomez A, Mulder N, Chimusa ER.

Front Genet. 2019 Jan 22;9:637. doi: 10.3389/fgene.2018.00637. eCollection 2018. Review.

6.

Strategies and opportunities for promoting bioinformatics in Zimbabwe.

Shoko R, Manasa J, Maphosa M, Mbanga J, Mudziwapasi R, Nembaware V, Sanyika WT, Tinago T, Chikwambi Z, Mawere C, Matimba A, Mugumbate G, Mufandaedza J, Mulder N, Patterton H.

PLoS Comput Biol. 2018 Nov 29;14(11):e1006480. doi: 10.1371/journal.pcbi.1006480. eCollection 2018 Nov. Review. No abstract available.

7.

Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics.

Baichoo S, Souilmi Y, Panji S, Botha G, Meintjes A, Hazelhurst S, Bendou H, Beste E, Mpangase PT, Souiai O, Alghali M, Yi L, O'Connor BD, Crusoe M, Armstrong D, Aron S, Joubert F, Ahmed AE, Mbiyavanga M, Heusden PV, Magosi LE, Zermeno J, Mainzer LS, Fadlelmola FM, Jongeneel CV, Mulder N.

BMC Bioinformatics. 2018 Nov 29;19(1):457. doi: 10.1186/s12859-018-2446-1.

8.

ANIMA: Association network integration for multiscale analysis.

Deffur A, Wilkinson RJ, Mayosi BM, Mulder NM.

Version 2. Wellcome Open Res. 2018 Nov 14 [revised 2018 Jan 1];3:27. doi: 10.12688/wellcomeopenres.14073.3. eCollection 2018.

9.

AAV8-mediated gene transfer of microRNA-132 improves beta cell function in mice fed a high-fat diet.

Mulder NL, Havinga R, Kluiver J, Groen AK, Kruit JK.

J Endocrinol. 2019 Feb 1;240(2):123-132. doi: 10.1530/JOE-18-0287.

PMID:
30400037
10.

Lymphocyte-Derived Exosomal MicroRNAs Promote Pancreatic β Cell Death and May Contribute to Type 1 Diabetes Development.

Guay C, Kruit JK, Rome S, Menoud V, Mulder NL, Jurdzinski A, Mancarella F, Sebastiani G, Donda A, Gonzalez BJ, Jandus C, Bouzakri K, Pinget M, Boitard C, Romero P, Dotta F, Regazzi R.

Cell Metab. 2019 Feb 5;29(2):348-361.e6. doi: 10.1016/j.cmet.2018.09.011. Epub 2018 Oct 11.

PMID:
30318337
11.

Integrative landscape of dysregulated signaling pathways of clinically distinct pancreatic cancer subtypes.

Sinkala M, Mulder N, Martin DP.

Oncotarget. 2018 Jun 26;9(49):29123-29139. doi: 10.18632/oncotarget.25632. eCollection 2018 Jun 26.

12.

A comprehensive survey of models for dissecting local ancestry deconvolution in human genome.

Geza E, Mugo J, Mulder NJ, Wonkam A, Chimusa ER, Mazandu GK.

Brief Bioinform. 2018 Jun 29. doi: 10.1093/bib/bby044. [Epub ahead of print]

PMID:
30010715
13.

Treatment results for severe psychiatric illness: which method is best suited to denote the outcome of mental health care?

de Beurs E, Blankers M, Delespaul P, van Duijn E, Mulder N, Nugter A, Swildens W, Tiemens BG, Theunissen J, van Voorst AFA, van Weeghel J.

BMC Psychiatry. 2018 Jul 13;18(1):225. doi: 10.1186/s12888-018-1798-4.

14.

Disruption of maternal gut microbiota during gestation alters offspring microbiota and immunity.

Nyangahu DD, Lennard KS, Brown BP, Darby MG, Wendoh JM, Havyarimana E, Smith P, Butcher J, Stintzi A, Mulder N, Horsnell W, Jaspan HB.

Microbiome. 2018 Jul 7;6(1):124. doi: 10.1186/s40168-018-0511-7.

15.

A common molecular signature of patients with sickle cell disease revealed by microarray meta-analysis and a genome-wide association study.

Ben Hamda C, 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. 2018 Jul 6;13(7):e0199461. doi: 10.1371/journal.pone.0199461. eCollection 2018.

16.

Development to enable precision medicine in Africa.

Mulder N.

Per Med. 2017 Nov;14(6):467-470. doi: 10.2217/pme-2017-0055. Epub 2017 Nov 24. No abstract available.

PMID:
29749855
17.

H3Africa: current perspectives.

Mulder N, Abimiku A, Adebamowo SN, de Vries J, Matimba A, Olowoyo P, Ramsay M, Skelton M, Stein DJ.

Pharmgenomics Pers Med. 2018 Apr 10;11:59-66. doi: 10.2147/PGPM.S141546. eCollection 2018. Review.

18.

Feeding-Related Gut Microbial Composition Associates With Peripheral T-Cell Activation and Mucosal Gene Expression in African Infants.

Wood 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. 2018 Sep 28;67(8):1237-1246. doi: 10.1093/cid/ciy265.

19.

Hackathons as a means of accelerating scientific discoveries and knowledge transfer.

Ghouila A, Siwo GH, Entfellner JD, Panji S, Button-Simons KA, Davis SZ, Fadlelmola FM; DREAM of Malaria Hackathon Participants, Ferdig MT, Mulder N.

Genome Res. 2018 May;28(5):759-765. doi: 10.1101/gr.228460.117. Epub 2018 Apr 12.

20.

HIV-exposure, early life feeding practices and delivery mode impacts on faecal bacterial profiles in a South African birth cohort.

Claassen-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. 2018 Mar 22;8(1):5078. doi: 10.1038/s41598-018-22244-6.

21.

Environmental and social factors impacting on epidemic and endemic tuberculosis: a modelling analysis.

Issarow CM, Mulder N, Wood R.

R Soc Open Sci. 2018 Jan 17;5(1):170726. doi: 10.1098/rsos.170726. eCollection 2018 Jan.

22.

The development and application of bioinformatics core competencies to improve bioinformatics training and education.

Mulder N, Schwartz R, Brazas MD, Brooksbank C, Gaeta B, Morgan SL, Pauley MA, Rosenwald A, Rustici G, Sierk M, Warnow T, Welch L.

PLoS Comput Biol. 2018 Feb 1;14(2):e1005772. doi: 10.1371/journal.pcbi.1005772. eCollection 2018 Feb.

23.

Employment Rates in Flexible Assertive Community Treatment Teams in The Netherlands: An Observational Study.

Kortrijk HE, Mulder NL, Kamperman AM, van Weeghel J.

Community Ment Health J. 2019 Feb;55(2):350-359. doi: 10.1007/s10597-018-0233-0. Epub 2018 Jan 17.

PMID:
29344834
24.

Whole-genome sequencing for an enhanced understanding of genetic variation among South Africans.

Choudhury 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. 2017 Dec 12;8(1):2062. doi: 10.1038/s41467-017-00663-9.

25.

Microbial Composition Predicts Genital Tract Inflammation and Persistent Bacterial Vaginosis in South African Adolescent Females.

Lennard K, Dabee S, Barnabas SL, Havyarimana E, Blakney A, Jaumdally SZ, Botha G, Mkhize NN, Bekker LG, Lewis DA, Gray G, Mulder N, Passmore JS, Jaspan HB.

Infect Immun. 2017 Dec 19;86(1). pii: e00410-17. doi: 10.1128/IAI.00410-17. Print 2018 Jan.

26.

Designing a course model for distance-based online bioinformatics training in Africa: The H3ABioNet experience.

Gurwitz KT, Aron S, Panji S, Maslamoney S, Fernandes PL, Judge DP, Ghouila A, Domelevo Entfellner JB, Guerfali FZ, Saunders C, Mansour Alzohairy A, Salifu SP, Ahmed R, Cloete R, Kayondo J, Ssemwanga D, Mulder N; H3ABioNet Consortium's Education Training and Working Group as members of the H3Africa Consortium.

PLoS Comput Biol. 2017 Oct 5;13(10):e1005715. doi: 10.1371/journal.pcbi.1005715. eCollection 2017 Oct.

27.

A systems-level analysis of drug-target-disease associations for drug repositioning.

Rutherford KD, Mazandu GK, Mulder NJ.

Brief Funct Genomics. 2018 Jan 1;17(1):34-41. doi: 10.1093/bfgp/elx015.

PMID:
28968683
28.

Associations between psychiatric symptoms and seclusion use: Clinical implications for care planning.

van de Sande R, Noorthoorn E, Nijman H, Wierdsma A, van de Staak C, Hellendoorn E, Mulder N.

Int J Ment Health Nurs. 2017 Oct;26(5):423-436. doi: 10.1111/inm.12381.

PMID:
28960735
29.

A multi-scenario genome-wide medical population genetics simulation framework.

Mugo JW, Geza E, Defo J, Elsheikh SSM, Mazandu GK, Mulder NJ, Chimusa ER.

Bioinformatics. 2017 Oct 1;33(19):2995-3002. doi: 10.1093/bioinformatics/btx369.

30.

Four simple recommendations to encourage best practices in research software.

Jiménez 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, Gelpí JL, Gladman S, Goble C, González Ferreiro M, Gonzalez-Beltran A, Griffin PC, Grüning B, Hagberg J, Holub P, Hooft R, Ison J, Katz DS, Leskošek B, López Gómez 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, Svobodová Vařeková R, Talvik HA, Todorov I, Treloar A, Tyagi S, van Gompel M, Vaughan D, Via A, Wang X, Watson-Haigh NS, Crouch S.

F1000Res. 2017 Jun 13;6. pii: ELIXIR-876. doi: 10.12688/f1000research.11407.1. eCollection 2017.

31.

Sickle cell disease: tipping the balance of genomic research to catalyse discoveries in Africa.

Makani J, Ofori-Acquah SF, Tluway F, Mulder N, Wonkam A.

Lancet. 2017 Jun 17;389(10087):2355-2358. doi: 10.1016/S0140-6736(17)31615-X. Epub 2017 Jun 15. No abstract available.

32.

Assessing computational genomics skills: Our experience in the H3ABioNet African bioinformatics network.

Jongeneel 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. 2017 Jun 1;13(6):e1005419. doi: 10.1371/journal.pcbi.1005419. eCollection 2017 Jun.

33.

Recent advances in predicting gene-disease associations.

Opap K, Mulder N.

F1000Res. 2017 Apr 26;6:578. doi: 10.12688/f1000research.10788.1. eCollection 2017. Review.

34.

Large-scale data-driven integrative framework for extracting essential targets and processes from disease-associated gene data sets.

Mazandu GK, Chimusa ER, Rutherford K, Zekeng EG, Gebremariam ZZ, Onifade MY, Mulder NJ.

Brief Bioinform. 2018 Nov 27;19(6):1141-1152. doi: 10.1093/bib/bbx052.

PMID:
28520909
35.

The Influence of HIV on the Evolution of Mycobacterium tuberculosis.

Koch 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. 2017 Jul 1;34(7):1654-1668. doi: 10.1093/molbev/msx107.

36.

Ten simple rules for forming a scientific professional society.

Gaëta BA, De Las Rivas J, Horton P, Meysman P, Mulder N, Romano P, Welch L.

PLoS Comput Biol. 2017 Mar 23;13(3):e1005226. doi: 10.1371/journal.pcbi.1005226. eCollection 2017 Mar. No abstract available.

37.

Development of Bioinformatics Infrastructure for Genomics Research.

Mulder 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 Ö; H3ABioNet Consortium, as members of the H3Africa Consortium.

Glob Heart. 2017 Jun;12(2):91-98. doi: 10.1016/j.gheart.2017.01.005. Epub 2017 Mar 13. Review.

38.

A Genomic and Protein-Protein Interaction Analyses of Nonsyndromic Hearing Impairment in Cameroon Using Targeted Genomic Enrichment and Massively Parallel Sequencing.

Lebeko K, Manyisa N, Chimusa ER, Mulder N, Dandara C, Wonkam A.

OMICS. 2017 Feb;21(2):90-99. doi: 10.1089/omi.2016.0171. Epub 2017 Jan 11.

PMID:
28075205
39.

Gene Ontology semantic similarity tools: survey on features and challenges for biological knowledge discovery.

Mazandu GK, Chimusa ER, Mulder NJ.

Brief Bioinform. 2017 Sep 1;18(5):886-901. doi: 10.1093/bib/bbw067.

PMID:
27473066
40.

Proceedings of a Sickle Cell Disease Ontology workshop - Towards the first comprehensive ontology for Sickle Cell Disease.

Mulder N, Nembaware V, Adekile A, Anie KA, Inusa B, Brown B, Campbell A, Chinenere F, Chunda-Liyoka C, Derebail VK, Geard A, Ghedira K, Hamilton CM, Hanchard NA, Haendel M, Huggins W, Ibrahim M, Jupp S, Kamga KK, Knight-Madden J, Lopez-Sall P, Mbiyavanga M, Munube D, Nirenberg D, Nnodu O, Ofori-Acquah SF, Ohene-Frempong K, Opap KB, Panji S, Park M, Pule G, Royal C, Sangeda R, Tayo B, Treadwell M, Tshilolo L, Wonkam A.

Appl Transl Genom. 2016 Mar 15;9:23-9. doi: 10.1016/j.atg.2016.03.005. eCollection 2016 Jun.

41.

Identification of Quantitative Proteomic Differences between Mycobacterium tuberculosis Lineages with Altered Virulence.

Peters JS, Calder B, Gonnelli G, Degroeve S, Rajaonarifara E, Mulder N, Soares NC, Martens L, Blackburn JM.

Front Microbiol. 2016 May 31;7:813. doi: 10.3389/fmicb.2016.00813. eCollection 2016.

42.

Applying, Evaluating and Refining Bioinformatics Core Competencies (An Update from the Curriculum Task Force of ISCB's Education Committee).

Welch L, Brooksbank C, Schwartz R, Morgan SL, Gaeta B, Kilpatrick AM, Mietchen D, Moore BL, Mulder N, Pauley M, Pearson W, Radivojac P, Rosenberg N, Rosenwald A, Rustici G, Warnow T.

PLoS Comput Biol. 2016 May 13;12(5):e1004943. doi: 10.1371/journal.pcbi.1004943. eCollection 2016 May. No abstract available.

43.

Proteogenomic Analysis of Mycobacterium smegmatis Using High Resolution Mass Spectrometry.

Potgieter MG, Nakedi KC, Ambler JM, Nel AJ, Garnett S, Soares NC, Mulder N, Blackburn JM.

Front Microbiol. 2016 Apr 5;7:427. doi: 10.3389/fmicb.2016.00427. eCollection 2016.

44.

A Quantitative Approach to Analyzing Genome Reductive Evolution Using Protein-Protein Interaction Networks: A Case Study of Mycobacterium leprae.

Akinola RO, Mazandu GK, Mulder NJ.

Front Genet. 2016 Mar 29;7:39. doi: 10.3389/fgene.2016.00039. eCollection 2016.

45.

The Development of Computational Biology in South Africa: Successes Achieved and Lessons Learnt.

Mulder NJ, Christoffels A, de Oliveira T, Gamieldien J, Hazelhurst S, Joubert F, Kumuthini J, Pillay CS, Snoep JL, Tastan Bishop Ö, Tiffin N.

PLoS Comput Biol. 2016 Feb 4;12(2):e1004395. doi: 10.1371/journal.pcbi.1004395. eCollection 2016 Feb.

46.

Real-Time Investigation of Tuberculosis Transmission: Developing the Respiratory Aerosol Sampling Chamber (RASC).

Wood R, Morrow C, Barry CE 3rd, Bryden WA, Call CJ, Hickey AJ, Rodes CE, Scriba TJ, Blackburn J, Issarow C, Mulder N, Woodward J, Moosa A, Singh V, Mizrahi V, Warner DF.

PLoS One. 2016 Jan 25;11(1):e0146658. doi: 10.1371/journal.pone.0146658. eCollection 2016.

47.

H3ABioNet, a sustainable pan-African bioinformatics network for human heredity and health in Africa.

Mulder NJ, Adebiyi E, Alami R, Benkahla A, Brandful J, Doumbia S, Everett D, Fadlelmola FM, Gaboun F, Gaseitsiwe S, Ghazal H, Hazelhurst S, Hide W, Ibrahimi A, Jaufeerally Fakim Y, Jongeneel CV, Joubert F, Kassim S, Kayondo J, Kumuthini J, Lyantagaye S, Makani J, Mansour Alzohairy A, Masiga D, Moussa A, Nash O, Ouwe Missi Oukem-Boyer O, Owusu-Dabo E, Panji S, Patterton H, Radouani F, Sadki K, Seghrouchni F, Tastan Bishop Ö, Tiffin N, Ulenga N; H3ABioNet Consortium.

Genome Res. 2016 Feb;26(2):271-7. doi: 10.1101/gr.196295.115. Epub 2015 Dec 1.

48.

Biotechnology Innovators To Convene in Cape Town, South Africa: Pharmacogenetics and Precision Medicine Conference (April 7-9, 2016).

Dandara C, Mpye K, Agenbag G, Skelton M, Zaahl M, Masimirembwa C, Mulder N, Warnich L, Pepper M.

OMICS. 2015 Dec;19(12):731-2. doi: 10.1089/omi.2015.0160. Epub 2015 Nov 17. No abstract available.

PMID:
26575827
49.

ancGWAS: a post genome-wide association study method for interaction, pathway and ancestry analysis in homogeneous and admixed populations.

Chimusa ER, Mbiyavanga M, Mazandu GK, Mulder NJ.

Bioinformatics. 2016 Feb 15;32(4):549-56. doi: 10.1093/bioinformatics/btv619. Epub 2015 Oct 27.

50.

A-DaGO-Fun: an adaptable Gene Ontology semantic similarity-based functional analysis tool.

Mazandu GK, Chimusa ER, Mbiyavanga M, Mulder NJ.

Bioinformatics. 2016 Feb 1;32(3):477-9. doi: 10.1093/bioinformatics/btv590. Epub 2015 Oct 17.

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