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Gene function prediction using semantic similarity clustering and enrichment analysis in the malaria parasite Plasmodium falciparum.
Bioinformatics. 2010 Oct 1;26(19):2431-7. doi: 10.1093/bioinformatics/btq450. Epub 2010 Aug 6.
Bioinformatics. 2010.
PMID: 20693320
PlasmoPredict: a gene function prediction website for Plasmodium falciparum.
Tedder PM, Bradford JR, McConkey GA, Bulpitt AJ, Westhead DR.
Tedder PM, et al.
Trends Parasitol. 2010 Mar;26(3):107-10. doi: 10.1016/j.pt.2009.12.004. Epub 2010 Jan 19.
Trends Parasitol. 2010.
PMID: 20089451
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GO-At: in silico prediction of gene function in Arabidopsis thaliana by combining heterogeneous data.
Bradford JR, Needham CJ, Tedder P, Care MA, Bulpitt AJ, Westhead DR.
Bradford JR, et al.
Plant J. 2010 Feb;61(4):713-21. doi: 10.1111/j.1365-313X.2009.04097.x. Epub 2009 Nov 27.
Plant J. 2010.
PMID: 19947983
Free article.
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Small RNA analysis in Petunia hybrida identifies unusual tissue-specific expression patterns of conserved miRNAs and of a 24mer RNA.
Tedder P, Zubko E, Westhead DR, Meyer P.
Tedder P, et al.
RNA. 2009 Jun;15(6):1012-20. doi: 10.1261/rna.1517209. Epub 2009 Apr 15.
RNA. 2009.
PMID: 19369427
Free PMC article.
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tHapMix: simulating tumour samples through haplotype mixtures.
Ivakhno S, Colombo C, Tanner S, Tedder P, Berri S, Cox AJ.
Ivakhno S, et al.
Bioinformatics. 2017 Jan 15;33(2):280-282. doi: 10.1093/bioinformatics/btw589. Epub 2016 Sep 7.
Bioinformatics. 2017.
PMID: 27605106
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Canvas SPW: calling de novo copy number variants in pedigrees.
Ivakhno S, Roller E, Colombo C, Tedder P, Cox AJ.
Ivakhno S, et al.
Bioinformatics. 2018 Feb 1;34(3):516-518. doi: 10.1093/bioinformatics/btx618.
Bioinformatics. 2018.
PMID: 29028893
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Genome sequencing and analysis of the Tasmanian devil and its transmissible cancer.
Murchison EP, Schulz-Trieglaff OB, Ning Z, Alexandrov LB, Bauer MJ, Fu B, Hims M, Ding Z, Ivakhno S, Stewart C, Ng BL, Wong W, Aken B, White S, Alsop A, Becq J, Bignell GR, Cheetham RK, Cheng W, Connor TR, Cox AJ, Feng ZP, Gu Y, Grocock RJ, Harris SR, Khrebtukova I, Kingsbury Z, Kowarsky M, Kreiss A, Luo S, Marshall J, McBride DJ, Murray L, Pearse AM, Raine K, Rasolonjatovo I, Shaw R, Tedder P, Tregidgo C, Vilella AJ, Wedge DC, Woods GM, Gormley N, Humphray S, Schroth G, Smith G, Hall K, Searle SM, Carter NP, Papenfuss AT, Futreal PA, Campbell PJ, Yang F, Bentley DR, Evers DJ, Stratton MR.
Murchison EP, et al.
Cell. 2012 Feb 17;148(4):780-91. doi: 10.1016/j.cell.2011.11.065.
Cell. 2012.
PMID: 22341448
Free PMC article.
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Endonuclease-sensitive regions of human spermatozoal chromatin are highly enriched in promoter and CTCF binding sequences.
Arpanahi A, Brinkworth M, Iles D, Krawetz SA, Paradowska A, Platts AE, Saida M, Steger K, Tedder P, Miller D.
Arpanahi A, et al.
Genome Res. 2009 Aug;19(8):1338-49. doi: 10.1101/gr.094953.109. Epub 2009 Jul 7.
Genome Res. 2009.
PMID: 19584098
Free PMC article.
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