Classification method for microarray probe selection using sequence, thermodynamics and secondary structure parameters. - Lalit Gupta; Sunil Kumar; Randeep Singh; Shaik Rafi; Nevenka Dimitrova; Aparni Gortha; B. Lakshmi; Deepa Pai; Sitharthan Kamalakaran; Xiaoyue Zhao; Michael Wigler (ICPR, 2008)

Towards identification of thematic overlaps in gene sets. - Nilanjana Banerjee; Vinay Varadan; Sitharthan Kamalakaran; Angel Janevski (GENSiPS, 2009)

Tools for High Throughput Differential Methylation Study in Cancer. - Nevenka Dimitrova; Sitharthan Kamalakaran; Angel Janevski; Nilanjana Banerjee; Vinay Varadan; Robert Lucito; James Hicks (ICT Innovations, 2009)

PAPAyA: a platform for breast cancer biomarker signature discovery, evaluation and assessment. - Angel Janevski; Sitharthan Kamalakaran; Nilanjana Banerjee; Vinay Varadan; Nevenka Dimitrova (BMC Bioinform., 2009)

Pathway and network analysis probing epigenetic influences on chemosensitivity in ovarian cancer. - Nilanjana Banerjee; Angel Janevski; Sitharthan Kamalakaran; Vinay Varadan; Robert Lucito; Nevenka Dimitrova (GENSiPS, 2010)

Comparative copy number variation from whole genome sequencing. - Angel Janevski; Vinay Varadan; Sitharthan Kamalakaran; Nilanjana Banerjee; Nevenka Dimitrova (GENSiPS, 2011)

A method for finding novel associations between genome-wide copy number and dna methylation patterns. - Man-Hung Eric Tang; Vinay Varadan; Sid Kamalakaran; Michael Q. Zhang; Nevenka Dimitrova; James Hicks (GENSiPS, 2011)

Statistical assessment of gene fusion detection algorithms using RNA Sequencing Data. - Vinay Varadan; Angel Janevski; Sitharthan Kamalakaran; Nilanjana Banerjee; Nevenka Dimitrova; Lyndsay N. Harris (SSP, 2012)