Manjula Thimma, PhD

Research Scientists


Research Interests

​Dr. Manjula is bioinformatician analyzing epigenetic datasets generated by next generation sequencing technologies. Denovo genome sequencing, structural variation studies, Transcroptomic analysis, RNAi component’s study and ChIP-Seq binding of Ago1 and Dicer1 are some of the project where she is involved. Majority of the projects are to understand the role retrotransposons in cell identity, reprogramming and differentiation.

Selected Publications

  • Genome-wide expression analysis offers new insights into the origin and evolution of Physcomitrella patens stress response
    Khraiwesh B., Qudeimat E., Thimma M., Chaiboonchoe A., Jijakli K., Alzahmi A., Arnoux M., Salehi-Ashtiani K.
    Sci Rep. 2015 Nov 30;5:17434. doi: 10.1038/srep17434
  • Carotenoid metabolic profiling and transcriptome-genome mining reveal functional equivalence among blue-pigmented copepods and appendicularia
    Mojib N., Amad M., Thimma M., Aldanondo N., Kumaran M., Irigoien X.
    Mol Ecol. 2014 Jun;23(11):2740-56. doi: 10.1111/mec.12781
  • InterPro: the integrative protein signature database
    Hunter S., Apweiler R., Attwood T.K., Bairoch A., Bateman A., Binns D., Bork P., Das U., Daugherty L., Duquenne L., Finn R.D., Gough J., Haft D., Hulo N., Kahn D., Kelly E., Laugraud A., Letunic I., Lonsdale D., Lopez R., Madera M., Maslen J., McAnulla C., McDowall J., Mistry J., Mitchell A., Mulder N., Natale D., Orengo C., Quinn A.F., Selengut J.D., Sigrist C.J., Thimma M., Thomas P.D., Valentin F., Wilson D., Wu C.H., Yeats C.
    Nucleic Acids Res. 2009 Jan;37(Database issue):D211-5. doi: 10.1093/nar/gkn785. Epub 2008 Oct 21
  • MiMiR--an integrated platform for microarray data sharing, mining and analysis
    Tomlinson C., Thimma M., Alexandrakis S., Castillo T., Dennis J.L., Brooks A., Bradley T., Turnbull C., Blaveri E., Barton G., Chiba N., Maratou K., Soutter P., Aitman T., Game L.
    BMC Bioinformatics. 2008 Sep 18;9:379. doi: 10.1186/1471-2105-9-379
  • eQTL Explorer: integrated mining of combined genetic linkage and expression experiments
    Mueller M., Goel A., Thimma M., Dickens N.J., Aitman T.J., Mangion J.
    Bioinformatics. 2006 Feb 15;22(4):509-11. Epub 2005 Dec 15


  • M.Sc. Bioinformatics, University of London, 2006
  • B.Tech ., Electronics Engineering, Anna University, India, 1992
  • B.Sc., Physics, Madurai Kamraj University, India, 1989

Professional Profile

  • 2013 – present: Research Scientist, BESE Division, KAUST, Saudi Arabia
  • 2010 – 2013: Research Specialist, Core labs, KAUST, Saudi Arabia
  • 2008 – 2010: Senior Bioinformatician, EBI, Cambridge, United Kingdom
  • 2004- 2010: Bioinformatician, MRC, Imperial College, London, UK

KAUST Affiliations

  • KAUST Environmental Epigenetics Program (KEEP)
  • Biological and Environmental Sciences and Engineering (BESE)

Research Interests Keywords

Bioinformatics Data analysis Computational biology

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