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]

"Virus interactions with human signal transduction pathways" with Zhongming Zhao, Junfeng Xia, Oznur Tastan, Irtisha Singh, Jaime Carbonell, Judith Klein-Seetharaman, I. J. Computational Biology and Drug Design 4(1): 83-105 (2011). [Paper]

"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

"Leveraging Heterogeneous Data Sources for Relational Semantic Parsing", with Nathan Schneider and Chris Dyer, Assoc. for Computational Linguistics (ACL) 2014 workshop on Semantic Parsing

"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] [Talk Slides]

"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! Here's the website of our campaign: CMU Laptop Rehab

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.