Meghana Kshirsagar

Graduate student

Language Technologies Institute

Gates Hillman Center (GHC) 5513

I am a third year Ph.D. student at LTI advised by Prof. Jaime Carbonell and Prof. Judith Klein-Seetharaman. I am interested in the broad area of machine learning for computational biology. My current research focus is on transfer learning methods for protein-protein interaction prediction.

Before computational biology I have had not-so-brief stints in the areas of Information Retrieval for structured data (during my Masters at IIT Bombay) and Information Extraction from unstructured data (at Yahoo! Labs). I worked with S. Sudarshan at IIT Bombay and with Rajeev Rastogi, Srinivasan H. Sengamedu and Shailesh Kumar at Yahoo! Labs. I have also interned at IBM research labs, Delhi with Prasan Roy and Venkatesan Chakravarthy.

In summer of 2012, I interned with Microsoft Research, Redmond and I worked on a problem in the broad area of Genetics. Last Spring I was a TA for Machine Learning, with Roni Rosenfeld.



"Multi-task learning for Host-Pathogen protein interactions" with Jaime Carbonell and Judith Klein-Seetharaman, ISMB 2013, Berlin. Bioinformatics 2013 (Acceptance rate: 15%). [Paper] [Supplementary Info]

"Techniques to cope with missing data in host-pathogen protein interaction prediction" with Jaime Carbonell and Judith Klein-Seetharaman, Bioinformatics 2012 (also presented at ECCB 2012, Basel). [Paper] [Supplementary Info]

"High Precision Web Extraction using Site Knowledge" with Rajeev Rastogi, Sandeepkumar Satpal, Srinivasan Sangamedu and Venu Satuluri, COMAD 2010 (Best Paper Award) [Paper]

"Keyword search on external memory data graphs" with Bhavana Dalvi and S. Sudarshan, VLDB 2008. [Paper]

Workshop papers, Posters

"Multisource transfer learning for host-pathogen protein interaction prediction in unlabeled tasks", with Jaime Carbonell and Judith Klein-Seetharaman, NIPS Workshop on Machine Learning for Computational Biology, 2013 [Paper]

"Confident prediction of Salmonella-human protein-protein interactions" with Schleker S., Nouretdinov I., Garcia-Garcia J., Oliva B., Klein-Seetharaman J. and Gammerman A, ECCB 2012.

"Transfer learning based methods towards the discovery of host-pathogen protein-protein interactions" with Jaime Carbonell and Judith Klein-Seetharaman, ISMB 2012. [Poster]


If you have an old but working laptop/PC to donate to a needy child, please contact me!

Some of my hobbies are reading science-fiction, birding, photography, kayaking, playing board-games. I have trained in Kathak, an Indian classical dance form. I also love to ice-skate and ski (still a novice) in Pittsburgh winters. These days I'm learning the piano.