Postal address:
Center for Integrative Bioinformatics Vienna (CIBIV)
Max Perutz Labs
Campus Vienna Biocenter 5 (VBC5)
A-1030 Wien, Austria
Research interests
Modelling of Coverage in RNA Sequencing
Estimating the number of molecules of a transcript from RNA Sequencing
Understanding the regulation of gene expression
Education
2018: University of Vienna, Vienna, PhD in Bioinformatics
2010: Nanyang Technological University, Singapore, M.Sc in Bioinformatics
2008: Nanyang Technological University, Singapore, B.Eng in Bioengineering
Professional Experience
Oct 2018 - Present: Post Doctoral Researcher at the Max Planck Institute for Evolutionary Biology
May 2018 - Sep 2018: Post Doctoral Researcher at the Center for Integrative Bioinformatics Vienna (CIBIV)
Nov 2012 - Apr 2018: Scientific Assistant at the Center for Integrative Bioinformatics Vienna (CIBIV)
Jun 2010 - Sep 2012: Bioinformatician at the Singapore Immunology Network, A*Star
Feb 2009 - Jul 2009: Research Officer at the Singapore Immunology Network, A*Star
Aug 2008 - Oct 2008: Intern at the Center for for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Netherlands
Talks and Posters
2017
MASAMB 2017, Vienna, April 3-4, 2017
Talk: “An Enumerative Combinatorics Approach to Analysing Fragmentation Patterns in RNA Sequencing”
Publications
2020
C. Prakash, F.C. Trognitz, P. Venhuizen, A. von Haeseler, and Bodo Trognitz
(2020) A Compendium of Genome-Wide Sequence Reads From NBS (Nucleotide Binding Site) Domains of Resistance Genes in the Common Potato. Sci. Rep., 10, 11392. (DOI: 10.1038/s41598-020-67848-z,
PMID: 32647195)
2017
C. Prakash and A. von Haeseler
(2017) An Enumerative Combinatorics Model for Fragmentation Patterns in RNA Sequencing Provides Insights into Non-uniformity of the Expected Fragment Starting Point and Coverage Profile. J. Comput. Biol., 24, 200-212. (DOI: 10.1089/cmb.2016.0096,
PMID: 27661099)
2012
W.S. Zhang, C. Prakash, C. Sum, Y. Gong, Y. Li, J.J. Kwok, N. Thiessen, S. Petterson, S.J. Jones, S. Knapp, H. Yang and K.C. Chin
(2012) Bromodomain-Containing-Protein 4 (BRD4) Regulates RNA Polymerase II Serine 2 Phosphorylation in Human CD4+ T Cells. J. Biol. Chem. (DOI: 10.1074/jbc.M112.413047)
2011
C.Y. Lee, Y.W. Kam, J. Fric, B. Malleret, E.G. Koh, C. Prakash, W. Huang, W.W. Lee, C. Lin, R.T Lin, L. Renia, C.I. Wang, L.F. Ng and L. Warter
(2011) Chikungunya virus neutralization antigens and direct cell-to-cell transmission are revealed by human antibody-escape mutants. PLoS Pathog. (DOI: 10.1371/journal.ppat.1002390)
2010
J. Eyles, A.L. Puaux, X. Wang, B. Toh, C. Prakash, M. Hong, T.G. Tan, L. Zheng, L.C. Ong, Y. Jin, M. Kato, A. Prévost-Blondel, P. Chow, H. Yang and J.P. Abastado
(2010) Tumor cells disseminate early, but immunosurveillance limits metastatic outgrowth, in a mouse model of melanoma. J Clin Invest. (DOI: 10.1172/JCI42002)
2012
M. Liu, C. Prakash, A. Nauta, R.J. Siezen and C. Francke
(2012) Computational analysis of cysteine and methionine metabolism and its regulation in dairy starter and related bacteria. J. Bacteriol. (DOI: 10.1128/JB.06816-11)
2008
J. Hao, Y. Yao, R.R. Varshney, L. Wang, C. Prakash, H. Li and D.A. Wang
(2008) Gene transfer and living release of transforming growth factor-beta3 for cartilage tissue engineering applications. Tissue Eng Part C Methods (DOI: 10.1089/ten.tec.2008.0163)
