User:Akshayb

From IyerLab

I am a Post-doctoral Fellow working in Dr Vishy Iyer's lab. The broad aim of my project is to dissect gene regulatory networks involved in carcinogenesis. I am currently working on three main projects:

1. Identify downstream chromosomal targets of transcription factors using ChIP-sequencing technology.
2. Identify transcription factors bound to specific promoters in vivo.
3. Identify downstream mRNA targets of microRNAs involved in cell proliferation.

Awards and Scholarships

1. Lilly Singapore Centre for Drug Discovery Scholarship to attend the "Omics meets cell Biology" conference, Keystone Symposium, 2009
2. Patricia L. Johnston Endowed Fellowship in Biological Sciences from the Molecular Genetics and Microbiology department, University of Texas at Austin, 2008
3. David Bruton, Jr. Graduate School Fellowship, University of Texas at Austin, 2007
4. A.P. Bradie Endowed Fellowship Award from the Molecular Genetics and Microbiology department, University of Texas at Austin, 2006
5. Full scholarship including a teaching assistantship from the Institute of Cellular and Molecular biology, UT-Austin, 2003
6. Junior Research Fellowship awarded by the Birla Smarak Kosh Foundation, Bombay Hospital, Mumbai, India, 2000

Conferences

1. Poster presentation: "A cMyc activated microrna supresses the interferon response enabling cell proliferation and survival", Omics Meets Cell Biology conference, Keystone Symposium, Brackenridge, 2009
2. Poster presentation: "Mapping chromosomal targets of transcription factors by Sequence Tag Analysis of Genomic Enrichment (STAGE)", ENCODE (Encyclopedia of DNA Elements) consortium, Bethesda, 2006
3. Oral presentation: "STAGE", ENCODE (Encyclopedia of DNA Elements) consortium, UC Santa Cruz, 2005

Publications

• Dynamic Remodeling of Individual Nucleosomes Across a Eukaryotic Genome in Response to Transcriptional Perturbation.

*Sushma Shivaswamy, *Akshay Bhinge, Yongjun Zhao, Steven Jones, Martin Hirst and Vishwanath R. Iyer

Plos Biology 2008 Mar 18;6(3):e65

 * authors contributed equally to the work

• Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.

The ENCODE Project Consortium

Nature 2007 June; 447:799-816

• Mapping the chromosomal targets of STAT1 by sequence tag analysis of genomic enrichment (STAGE).

Akshay A. Bhinge, Jonghwan Kim, Ghia Euskirchen, Michael Snyder and Vishwanath Iyer

Genome Research 2007 17:910-916

• Mapping DNA-protein interactions in large genomes by sequence tag analysis of genomic enrichment.

Jonghwan Kim, Akshay A Bhinge, Xochitl C Morgan, Vishwanath R Iyer

Nature Methods 2005 Jan; 2, 47-53

• Accurate detection of protein:ligand binding sites using molecular dynamics simulations.

Bhinge A, Chakrabarti P, Uthanumallian K, Bajaj K, Chakraborty K, Varadarajan R.

Structure (Camb) 2004 Nov;12(11):1989-99

• Role of L-lysine HCl in adoptive immune therapy towards development of suitable tuberculosis vaccination.

Dasgupta S, Chandran V, Bhinge A, Sewlikar S, Nimbkar A, Datta D.

Indian J Exp Biol 2004 Aug;42(8):758-65

• Role of L-lysine HCl in immunopotentiation towards development of suitable tuberculosis vaccination.

Dasgupta S, Bhinge A, Chandran V, Sewlikar S, Nimbkar A, Datta D.

Vaccine 2003 Dec 1;21(32):4722-7

• A Procedure for Detection and Quantitation of Cavity Volumes in Proteins. APPLICATION TO MEASURE THE STRENGTH OF THE HYDROPHOBIC DRIVING FORCE IN PROTEIN FOLDING.

Suvobrata Chakravarty, Akshay Bhinge, and Raghavan Varadarajan

J. Biol. Chem. 2002 277:31345-31353

• Lysine: Is it worth more. (Review)

D.Datta, A.Bhinge, V.Chandran.

Cytotechnology 2001 36(1):3-32

• Effect of Cationic amino acid, L-Lysine on the growth and secretion of hybridoma cell line OKT3.

D.Datta, P.K.Kundu, S.Biswas, S.Dasgupta, A.Bhinge and V.Chandran.

Hybridoma 2000 19(4):339-346.