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Professor Alan Christoffels

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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    1. Christoffels A, Abayomi A. Careful governance of African biobanks. Lancet. 2020 01 04; 395(10217):29-30. PMID: 31908277.
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    2. Shahbaaz M, Cloete R, Grobbelaar M, Sampson S, Christoffels A. Structure based identification of novel inhibitors against ATP synthase of Mycobacterium tuberculosis: A combined in silico and in vitro study. Int J Biol Macromol. 2019 Aug 15; 135:582-590. PMID: 31121229.
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    3. Shahbaaz M, Nkaule A, Christoffels A. Designing novel possible kinase inhibitor derivatives as therapeutics against Mycobacterium tuberculosis: An in silico study. Sci Rep. 2019 03 13; 9(1):4405. PMID: 30867456.
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    4. du Plessis J, Cloete R, Burchell L, Sarkar P, Warren RM, Christoffels A, Wigneshweraraj S, Sampson SL. Exploring the potential of T7 bacteriophage protein Gp2 as a novel inhibitor of mycobacterial RNA polymerase. Tuberculosis (Edinb). 2017 09; 106:82-90. PMID: 28802409.
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    5. Cloete R, Akurugu WA, Werely CJ, van Helden PD, Christoffels A. Structural and functional effects of nucleotide variation on the human TB drug metabolizing enzyme arylamine N-acetyltransferase 1. J Mol Graph Model. 2017 08; 75:330-339. PMID: 28628859.
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    6. Allam M, Spillings BL, Abdalla H, Mapiye D, Koekemoer LL, Christoffels A. Identification and characterization of microRNAs expressed in the African malaria vector Anopheles funestus life stages using high throughput sequencing. Malar J. 2016 Nov 08; 15(1):542. PMID: 27825380.
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    7. Dashti ZJ, Gamieldien J, Christoffels A. Computational characterization of Iron metabolism in the Tsetse disease vector, Glossina morsitans: IRE stem-loops. BMC Genomics. 2016 08 08; 17:561. PMID: 27503259.
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    8. Cloete R, Oppon E, Murungi E, Schubert WD, Christoffels A. Resistance related metabolic pathways for drug target identification in Mycobacterium tuberculosis. BMC Bioinformatics. 2016 Feb 08; 17:75. PMID: 26856535.
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    9. Egieyeh SA, Syce J, Malan SF, Christoffels A. Prioritization of anti-malarial hits from nature: chemo-informatic profiling of natural products with in vitro antiplasmodial activities and currently registered anti-malarial drugs. Malar J. 2016 Jan 29; 15:50. PMID: 26823078.
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    10. Egieyeh S, Syce J, Christoffels A, Malan SF. Exploration of Scaffolds from Natural Products with Antiplasmodial Activities, Currently Registered Antimalarial Drugs and Public Malarial Screen Data. Molecules. 2016 Jan 16; 21(1):104. PMID: 26784165.
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    11. Mwangi S, Attardo G, Suzuki Y, Aksoy S, Christoffels A. TSS seq based core promoter architecture in blood feeding Tsetse fly (Glossina morsitans morsitans) vector of Trypanosomiasis. BMC Genomics. 2015 Sep 22; 16:722. PMID: 26394619.
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    12. van der Merwe C, Jalali Sefid Dashti Z, Christoffels A, Loos B, Bardien S. Evidence for a common biological pathway linking three Parkinson's disease-causing genes: parkin, PINK1 and DJ-1. Eur J Neurosci. 2015 May; 41(9):1113-25. PMID: 25761903.
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    13. Mbandi SK, Hesse U, van Heusden P, Christoffels A. Inferring bona fide transfrags in RNA-Seq derived-transcriptome assemblies of non-model organisms. BMC Bioinformatics. 2015 Feb 21; 16:58. PMID: 25880035.
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    14. Murungi EK, Kariithi HM, Adunga V, Obonyo M, Christoffels A. Evolution and Structural Analyses of Glossina morsitans (Diptera; Glossinidae) Tetraspanins. Insects. 2014 Nov 12; 5(4):885-908. PMID: 26462947.
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    15. Christoffels A, Masiga D, Berriman M, Lehane M, Touré Y, Aksoy S. International glossina genome initiative 2004-2014: a driver for post-genomic era research on the African continent. PLoS Negl Trop Dis. 2014 Aug; 8(8):e3024. PMID: 25144472.
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    16. Masiga D, Obiero G, Macharia R, Mireji P, Christoffels A. Chemosensory receptors in tsetse flies provide link between chemical and behavioural ecology. Trends Parasitol. 2014 Sep; 30(9):426-8. PMID: 25017128.
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    17. Genome sequence of the tsetse fly (Glossina morsitans): vector of African trypanosomiasis. Science. 2014 Apr 25; 344(6182):380-6. PMID: 24763584.
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    18. Aksoy S, Attardo G, Berriman M, Christoffels A, Lehane M, Masiga D, Toure Y. Human African trypanosomiasis research gets a boost: unraveling the tsetse genome. PLoS Negl Trop Dis. 2014 Apr; 8(4):e2624. PMID: 24762859.
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    19. Obiero GF, Mireji PO, Nyanjom SR, Christoffels A, Robertson HM, Masiga DK. Odorant and gustatory receptors in the tsetse fly Glossina morsitans morsitans. PLoS Negl Trop Dis. 2014 Apr; 8(4):e2663. PMID: 24763191.
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    20. Sreenivasan R, Jiang J, Wang X, Bártfai R, Kwan HY, Christoffels A, Orbán L. Gonad differentiation in zebrafish is regulated by the canonical Wnt signaling pathway. Biol Reprod. 2014 Feb; 90(2):45. PMID: 24174574.
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    21. Mbandi SK, Hesse U, Rees DJ, Christoffels A. A glance at quality score: implication for de novo transcriptome reconstruction of Illumina reads. Front Genet. 2014; 5:17. PMID: 24575122.
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    22. Harkins GW, Martin DP, Christoffels A, Varsani A. Towards inferring the global movement of beak and feather disease virus. Virology. 2014 Feb; 450-451:24-33. PMID: 24503064.
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    23. Murungi E, Barlow LD, Venkatesh D, Adung'a VO, Dacks JB, Field MC, Christoffels A. A comparative analysis of trypanosomatid SNARE proteins. Parasitol Int. 2014 Apr; 63(2):341-8. PMID: 24269876.
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    24. Abayomi A, Christoffels A, Grewal R, Karam LA, Rossouw C, Staunton C, Swanepoel C, van Rooyen B. Challenges of biobanking in South Africa to facilitate indigenous research in an environment burdened with human immunodeficiency virus, tuberculosis, and emerging noncommunicable diseases. Biopreserv Biobank. 2013 Dec; 11(6):347-54. PMID: 24835364.
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    25. Picone B, Hesse U, Panji S, Van Heusden P, Jonas M, Christoffels A. Taste and odorant receptors of the coelacanth--a gene repertoire in transition. J Exp Zool B Mol Dev Evol. 2014 Sep; 322(6):403-14. PMID: 24106203.
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    26. Amemiya CT, Alföldi J, Lee AP, Fan S, Philippe H, Maccallum I, Braasch I, Manousaki T, Schneider I, Rohner N, Organ C, Chalopin D, Smith JJ, Robinson M, Dorrington RA, Gerdol M, Aken B, Biscotti MA, Barucca M, Baurain D, Berlin AM, Blatch GL, Buonocore F, Burmester T, Campbell MS, Canapa A, Cannon JP, Christoffels A, De Moro G, Edkins AL, Fan L, Fausto AM, Feiner N, Forconi M, Gamieldien J, Gnerre S, Gnirke A, Goldstone JV, Haerty W, Hahn ME, Hesse U, Hoffmann S, Johnson J, Karchner SI, Kuraku S, Lara M, Levin JZ, Litman GW, Mauceli E, Miyake T, Mueller MG, Nelson DR, Nitsche A, Olmo E, Ota T, Pallavicini A, Panji S, Picone B, Ponting CP, Prohaska SJ, Przybylski D, Saha NR, Ravi V, Ribeiro FJ, Sauka-Spengler T, Scapigliati G, Searle SM, Sharpe T, Simakov O, Stadler PF, Stegeman JJ, Sumiyama K, Tabbaa D, Tafer H, Turner-Maier J, van Heusden P, White S, Williams L, Yandell M, Brinkmann H, Volff JN, Tabin CJ, Shubin N, Schartl M, Jaffe DB, Postlethwait JH, Venkatesh B, Di Palma F, Lander ES, Meyer A, Lindblad-Toh K. The African coelacanth genome provides insights into tetrapod evolution. Nature. 2013 Apr 18; 496(7445):311-6. PMID: 23598338.
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    27. Dawe AS, Radovanovic A, Kaur M, Sagar S, Seshadri SV, Schaefer U, Kamau AA, Christoffels A, Bajic VB. DESTAF: a database of text-mined associations for reproductive toxins potentially affecting human fertility. Reprod Toxicol. 2012 Jan; 33(1):99-105. PMID: 22198179.
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    28. Seshadri Sundararajan V, Gabere MN, Pretorius A, Adam S, Christoffels A, Lehväslaiho M, Archer JA, Bajic VB. DAMPD: a manually curated antimicrobial peptide database. Nucleic Acids Res. 2012 Jan; 40(Database issue):D1108-12. PMID: 22110032.
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    29. Kwofie SK, Schaefer U, Sundararajan VS, Bajic VB, Christoffels A. HCVpro: hepatitis C virus protein interaction database. Infect Genet Evol. 2011 Dec; 11(8):1971-7. PMID: 21930248.
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    30. Celton JM, Christoffels A, Sargent DJ, Xu X, Rees DJ. Genome-wide SNP identification by high-throughput sequencing and selective mapping allows sequence assembly positioning using a framework genetic linkage map. BMC Biol. 2010 Dec 30; 8:155. PMID: 21192788.
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    31. Kwofie SK, Radovanovic A, Sundararajan VS, Maqungo M, Christoffels A, Bajic VB. Dragon exploratory system on hepatitis C virus (DESHCV). Infect Genet Evol. 2011 Jun; 11(4):734-9. PMID: 21194573.
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    32. Shulaev V, Sargent DJ, Crowhurst RN, Mockler TC, Folkerts O, Delcher AL, Jaiswal P, Mockaitis K, Liston A, Mane SP, Burns P, Davis TM, Slovin JP, Bassil N, Hellens RP, Evans C, Harkins T, Kodira C, Desany B, Crasta OR, Jensen RV, Allan AC, Michael TP, Setubal JC, Celton JM, Rees DJ, Williams KP, Holt SH, Ruiz Rojas JJ, Chatterjee M, Liu B, Silva H, Meisel L, Adato A, Filichkin SA, Troggio M, Viola R, Ashman TL, Wang H, Dharmawardhana P, Elser J, Raja R, Priest HD, Bryant DW, Fox SE, Givan SA, Wilhelm LJ, Naithani S, Christoffels A, Salama DY, Carter J, Lopez Girona E, Zdepski A, Wang W, Kerstetter RA, Schwab W, Korban SS, Davik J, Monfort A, Denoyes-Rothan B, Arus P, Mittler R, Flinn B, Aharoni A, Bennetzen JL, Salzberg SL, Dickerman AW, Velasco R, Borodovsky M, Veilleux RE, Folta KM. The genome of woodland strawberry (Fragaria vesca). Nat Genet. 2011 Feb; 43(2):109-16. PMID: 21186353.
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    33. Mwangi S, Murungi E, Jonas M, Christoffels A. Evolutionary genomics of Glossina morsitans immune-related CLIP domain serine proteases and serine protease inhibitors. Infect Genet Evol. 2011 Jun; 11(4):740-5. PMID: 21055483.
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    34. Maqungo M, Kaur M, Kwofie SK, Radovanovic A, Schaefer U, Schmeier S, Oppon E, Christoffels A, Bajic VB. DDPC: Dragon Database of Genes associated with Prostate Cancer. Nucleic Acids Res. 2011 Jan; 39(Database issue):D980-5. PMID: 20880996.
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    35. Essack M, Radovanovic A, Schaefer U, Schmeier S, Seshadri SV, Christoffels A, Kaur M, Bajic VB. DDEC: Dragon database of genes implicated in esophageal cancer. BMC Cancer. 2009 Jul 06; 9:219. PMID: 19580656.
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    36. Jiang SY, Christoffels A, Ramamoorthy R, Ramachandran S. Expansion mechanisms and functional annotations of hypothetical genes in the rice genome. Plant Physiol. 2009 Aug; 150(4):1997-2008. PMID: 19535473.
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    37. Sagar S, Kaur M, Dawe A, Seshadri SV, Christoffels A, Schaefer U, Radovanovic A, Bajic VB. DDESC: Dragon database for exploration of sodium channels in human. BMC Genomics. 2008 Dec 20; 9:622. PMID: 19099596.
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    38. Kaur M, Radovanovic A, Essack M, Schaefer U, Maqungo M, Kibler T, Schmeier S, Christoffels A, Narasimhan K, Choolani M, Bajic VB. Database for exploration of functional context of genes implicated in ovarian cancer. Nucleic Acids Res. 2009 Jan; 37(Database issue):D820-3. PMID: 18790805.
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    39. Sreenivasan R, Cai M, Bartfai R, Wang X, Christoffels A, Orban L. Transcriptomic analyses reveal novel genes with sexually dimorphic expression in the zebrafish gonad and brain. PLoS One. 2008 Mar 12; 3(3):e1791. PMID: 18335061.
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    40. Christoffels A, Bartfai R, Srinivasan H, Komen H, Orban L. Comparative genomics in cyprinids: common carp ESTs help the annotation of the zebrafish genome. BMC Bioinformatics. 2006 Dec 18; 7 Suppl 5:S2. PMID: 17254304.
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    41. Bajic VB, Tan SL, Christoffels A, Schönbach C, Lipovich L, Yang L, Hofmann O, Kruger A, Hide W, Kai C, Kawai J, Hume DA, Carninci P, Hayashizaki Y. Mice and men: their promoter properties. PLoS Genet. 2006 Apr; 2(4):e54. PMID: 16683032.
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    42. Christoffels A, Brenner S, Venkatesh B. Tetraodon genome analysis provides further evidence for whole-genome duplication in the ray-finned fish lineage. Comp Biochem Physiol Part D Genomics Proteomics. 2006 Mar; 1(1):13-9. PMID: 20483230.
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    43. Loh YH, Christoffels A, Brenner S, Hunziker W, Venkatesh B. Extensive expansion of the claudin gene family in the teleost fish, Fugu rubripes. Genome Res. 2004 Jul; 14(7):1248-57. PMID: 15197168.
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    44. Christoffels A, Koh EG, Chia JM, Brenner S, Aparicio S, Venkatesh B. Fugu genome analysis provides evidence for a whole-genome duplication early during the evolution of ray-finned fishes. Mol Biol Evol. 2004 Jun; 21(6):1146-51. PMID: 15014147.
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    45. Li Y, Chia JM, Bartfai R, Christoffels A, Yue GH, Ding K, Ho MY, Hill JA, Stupka E, Orban L. Comparative analysis of the testis and ovary transcriptomes in zebrafish by combining experimental and computational tools. Comp Funct Genomics. 2004; 5(5):403-18. PMID: 18629171.
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    46. Kelso J, Visagie J, Theiler G, Christoffels A, Bardien S, Smedley D, Otgaar D, Greyling G, Jongeneel CV, McCarthy MI, Hide T, Hide W. eVOC: a controlled vocabulary for unifying gene expression data. Genome Res. 2003 Jun; 13(6A):1222-30. PMID: 12799354.
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    47. Koh EG, Lam K, Christoffels A, Erdmann MV, Brenner S, Venkatesh B. Hox gene clusters in the Indonesian coelacanth, Latimeria menadoensis. Proc Natl Acad Sci U S A. 2003 Feb 04; 100(3):1084-8. PMID: 12547909.
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    48. Aparicio S, Chapman J, Stupka E, Putnam N, Chia JM, Dehal P, Christoffels A, Rash S, Hoon S, Smit A, Gelpke MD, Roach J, Oh T, Ho IY, Wong M, Detter C, Verhoef F, Predki P, Tay A, Lucas S, Richardson P, Smith SF, Clark MS, Edwards YJ, Doggett N, Zharkikh A, Tavtigian SV, Pruss D, Barnstead M, Evans C, Baden H, Powell J, Glusman G, Rowen L, Hood L, Tan YH, Elgar G, Hawkins T, Venkatesh B, Rokhsar D, Brenner S. Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes. Science. 2002 Aug 23; 297(5585):1301-10. PMID: 12142439.
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    49. Carpenter JE, Christoffels A, Weinbach Y, Hide WA. Assessment of the parallelization approach of d2_cluster for high-performance sequence clustering. J Comput Chem. 2002 May; 23(7):755-7. PMID: 11948594.
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    50. Miller RT, Christoffels AG, Gopalakrishnan C, Burke J, Ptitsyn AA, Broveak TR, Hide WA. A comprehensive approach to clustering of expressed human gene sequence: the sequence tag alignment and consensus knowledge base. Genome Res. 1999 Nov; 9(11):1143-55. PMID: 10568754.
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