Sirintra Nakjang

After completing an MRes in Bioinformatics at Newcastle University, Sirintra started her career in bioinformatics at the Wellcome Trust Sanger Institute as a computer biologist maintaining an in-house genotyping analysis pipeline. She then returned to Newcastle to carry out her PhD under the supervision of Prof. Robert P. Hirt and Prof. Anil Wipat. Her PhD project involved the development of a systematic, high-throughput sequence analysis workflow to automate the analyses of genome sequence data. The main purpose of this workflow was to identify novel extracytoplasmic protein families that may play important roles in host-microbe interactions. Having gained knowledge of the evolution of protein families in microorganisms, she continued her post-doctoral research in Prof. Martin Embley and Prof. Robert P. Hirt’s group in the Institute for Cell and Molecular Biosciences. She investigated the evolution of gene families in the genomes of eukaryotic parasites. Sirintra joined the Bioinformatics Support Unit in March 2014. Her main role is to support the bioinformatics activities within the Northern Institute of Cancer Research.

Email address: sirintra.nakjang@ncl.ac.uk

Sirintra’s main areas of research interests include:

  • Comparative genomics
  • Protein family evolution
  • Reconstruction of metabolic pathways from genomic data
  • High-throughput data analysis and workflow development
  • Data integration
Publications

Jones D, Wade M, Nakjang S, Chaytor L, Grey J, Robson CN, Gaughan L. FOXA1 regulates androgen receptor variant activity in models of castrate-resistant prostate cancer. Oncotarget. (2015).

O’Neill D, Jones D, Wade M, Grey J, Nakjang S, Guo W, Cork D, Davies BR, Wedge SR, Robson CN, Gaughan L. Development and exploitation of a novel mutant androgen receptor modelling strategy to identify new targets for advanced prostate cancer therapy. Oncotarget. (2015).

Gabriel AS, Lafta FM, Schwalbe EC, Nakjang S, Cockell SJ, Iliasova A, Enshaei A, Schwab C, Rand V, Clifford SC, Kinsey SE, Mitchell CD, Vora A, Harrison CJ, Moorman AV, Strathdee G. Epigenetic landscape correlates with genetic subtype but does not predict outcome in childhood acute lymphoblastic leukemia. Epigenetics. vol 3 doi: 10.1080/15592294.2015.1061174 (2015).

Heinz E, Hacker C, Dean P, Mifsud J, Goldberg AV, Williams TA, Nakjang S, Gregory A, Hirt RP, Lucocq JM, Kunji ER, Embley TM. Plasma Membrane-Located Purine Nucleotide Transport Proteins Are Key Components for Host Exploitation by Microsporidian Intracellular Parasites. PLoS Pathog. vol 10 doi: 10.1371 (2014).

Flanagan K, Cockell S, Harwood C, Hallinan J, Nakjang S, Lawry B, Wipat A. A distributed computational search strategy for the identification of diagnostics targets: Application to finding aptamer targets for methicillin-resistant staphylococci. J Integr Bioinform. vol 11 doi: 10.2390 (2014).

Dean P, Major P, Nakjang S, Hirt RP, Embley TM. Transport proteins of parasitic protists and their role in nutrient salvage. Front Plant Sci. vol 5 (2014).

Alsmark C, Foster PG, Sicheritz-Ponten T, Nakjang S, Embley TM, Hirt RP. Patterns of prokaryotic lateral gene transfers affecting parasitic microbial eukaryotes. Genome Biol. vol 14 (2013).

Nakjang S, Williams TA, Heinz E, Watson AK, Foster PG, Sendra KM, Heaps SE, Hirt RP, Embley TM. Reduction and expansion in microsporidian genome evolution: new insights from comparative genomics. Genome Biol Evol. vol 5 p. 2285-303 (2013).

Collison M, Hirt RP, Wipat A, Nakjang S, Sanseau P, Brown JR. Data mining the human gut microbiota for therapeutic targets. Brief Bioinform. vol 6 p. 751-68 (2012).

Flanagan K, Nakjang S, Hallinan J, Harwood C, Hirt RP, Pocock MR, Wipat A. Microbase2.0: a generic framework for computationally intensive bioinformatics workflows in the cloud. J Integr Bioinform. vol 9 doi: 10.2390 (2012).

Heinz E, Williams TA, Nakjang S, Noel CJ, Swan DC, Goldberg AV, Harris SR, Weinmaier T, Markert S, Becher D, Bernhardt J, Dagan T, Hacker C, Lucocq JM, Schweder T, Rattei T, Hall N, Hirt RP, Embley TM. The Genome of the Obligate Intracellular Parasite Trachipleistophora hominis: New Insights into Microsporidian Genome Dynamics and Reductive Evolution. PLoS Pathog. vol 8 p. e1002979 (2012).

Nakjang S, Ndeh AN, Wipat A, Bolam DN, Hirt RP. A Novel Extracellular Metallopeptidase Domain Shared by Animal Host-Associated Mutualistic and Pathogenic Microbes. PLoS ONE. vol 7 p. doi: 10.1371 (2012).

Hirt RP, de Miguel N, Nakjang S, Dessi D, Liu YC, Diaz N, Rappelli P, Acosta-Serrano A, Fiori PL, Mottram JC. Trichomonas vaginalis Pathobiology New Insights from the Genome Sequence. Adv Parasitol. vol 77 p. 87-140 (2011).

Kolluru B, Nakjang S, Hirt RP, Wipat A, Ananiadou S. Automatic extraction of microorganisms and their habitats from free text using mining workflows. J Integr Bioinform. vol 8 p. 184 (2011).