Sujai Kumar

I am a genome informatician and have helped assemble and annotate several nematode genomes as part of my PhD work in the Blaxter Lab at the University of Edinburgh. At the Aboobaker Lab, I will be creating genomic and transcriptomic resources for planarian flatworms, which are excellent models for studying regeneration and ageing. I will also be undertaking comparative evolutionary genomics projects to see what differentiates flatworm species that age/don't age, regenerate/don't regenerate, and undergo sexual/asexual reproduction.

Selected Publications

Wang J, Mitreva M, Berriman M, Thorne A, Magrini V, Koutsovoulos G, Kumar S, Blaxter ML, Davis RE, 2012. Silencing of Germline-Expressed Genes by DNA Elimination in Somatic Cells. Developmental Cell.

Godel C, Kumar S, Koutsovoulos G, Ludin P, Nilsson D, Comandatore F, Wrobel N, Thompson M, Schmid CD, Goto S, Bringaud F, Wolstenholme A, Bandi C, Epe C, Kaminsk R, Blaxter M, Maser P, 2012. The genome of the heartworm, Dirofilaria immitis, reveals drug and vaccine targets. FASEBJ

Kumar S, Blaxter M, 2012. Simultaneous genome sequencing of symbionts and their hosts. Symbiosis, 55 (3), 119-126.

Kumar S, Schiffer PH, Blaxter M, 2012. 959 nematode genomes: a semantic wiki for coordinating sequencing projects. Nucleic Acids Research 40 (D1), D1295-D1300.

Kumar S, Koutsovoulos GD, Kaur G, Blaxter ML, 2012.Toward 959 nematode genomes. Worm 1 (1).

Blaxter M, Kumar S, Kaur G, Koutsouvoulos G, Elsworth B, 2011.Genomics and transcriptomics across the diversity of the nematoda. Parasite Immunology 34 (2-3), 108-120.

Kumar S, Blaxter M, 2010. Comparing de novo assemblers for 454 transcriptome data. BMC Genomics 11 (1), 571+.

Hunt P, Martinelli A, Modrzynska K, Borges S, Creasey A, Rodrigues L, Beraldi D, Loewe L, Fawcett R, Kumar S, Thomson M, Trivedi U, Otto T, Pain A, Blaxter M, Cravo P, 2010. Experimental evolution, genetic analysis and genome re-sequencing reveal the mutation conferring artemisinin resistance in an isogenic lineage of malaria parasites. BMC Genomics 11 (1), 499+.

Ferguson L, Lee SF, Chamberlain N, Nadeau N, Joron M, Baxter S, Wilkinson P, Papanicolaou A, Kumar S, Kee J, Clark R, Davidson C, Glithero R, Beasley H, Vogel H, Ffrench-Constant R, Jiggins C, 2010. Characterization of a hotspot for mimicry: assembly of a butterfly wing transcriptome to genomic sequence at the HmYb/sb locus. Molecular Ecology 19 (s1), 240-254.

Keightley PD, Trivedi U, Thomson M, Oliver F, Kumar S, Blaxter ML, 2009. Analysis of the genome sequences of three Drosophila melanogaster spontaneous mutation accumulation lines. Genome Research 19 (7), 1195-1201.

Kumar S, Mitra S, 2006. Self-Organizing traffic at a malfunctioning intersection. Journal of Artificial Societies and Social Simulation 9 (4).

Mitra S, Kumar S, 2006. Fractal replication in time-manipulated one-dimensional cellular automata. Complex Systems 16 (3), 191-207.

Kumar S, Miller KF, 2005. Let SMIL be your umbrella: software tools for transcribing, coding, and presenting digital video in behavioral research. Behavior Research Methods 37 (2), 359-367.



Contact
+441865271234
aziz.aboobaker"at"zoo.ox.ac.uk

Address
F18, Department of Zoology
Tinbergen Building
Oxford
OX1 3PS
UK