Judith Klein-Seetharaman

38 papers A* 1A 1B 2C 2Misc 8Journal 17Unranked 6

Year	Rank	Type	Title / Venue / Authors
2025	B	`conf`	Decoding the Functional Interactome of Non-model Organisms with PHILHARMONIC. RECOMB Samuel Sledzieski, Charlotte Versavel, Rohit Singh, Faith Ocitti, Kapil Devkota, Lokender Kumar, Polina Shpilker, Liza Roger, Jinkyu Yang, Nastassja Lewinski, Hollie Putnam, Bonnie Berger, Judith Klein-Seetharaman, Lenore Cowen
2024	—	`conf`	Trimming of AlphaFold Predicted Protein Structures for Functional Characterization. ICCBB Roshan Klein-Seetharaman, Thomas Jennewein, Chase Harms, Punarvash Mitta, Gil Speyer, Judith Klein-Seetharaman
2024	J	`jnl`	Use of What-if Scenarios to Help Explain Artificial Intelligence Models for Neonatal Health. CoRR Abdullah Mamun, Lawrence D. Devoe, Mark I. Evans, David W. Britt, Judith Klein-Seetharaman, Hassan Ghasemzadeh
2023	C	`conf`	Neonatal Risk Modeling and Prediction. BSN Abdullah Mamun, Chia-Cheng Kuo, David W. Britt, Lawrence D. Devoe, Mark I. Evans, Hassan Ghasemzadeh, Judith Klein-Seetharaman
2022	J	`jnl`	Building a Quantum Engineering Undergraduate Program. IEEE Trans. Educ. Abraham T. Asfaw, Alexandre Blais, Kenneth R. Brown, Jonathan Candelaria, Christopher Cantwell, Lincoln D. Carr, Joshua Combes, Dripto M. Debroy, John M. Donohue, Sophia E. Economou, Emily Edwards, Michael F. J. Fox, Steven M. Girvin, Alan Ho, Hilary M. Hurst, Zubin Jacob, Blake R. Johnson, Ezekiel Johnston-Halperin, Robert Joynt, Eliot Kapit, Judith Klein-Seetharaman, Martin Laforest, H. J. Lewandowski, Theresa W. Lynn, Corey Rae H. McRae, Celia Merzbacher, Spyridon Michalakis, Prineha Narang, William D. Oliver, Jens Palsberg, David P. Pappas, Michael G. Raymer, David J. Reilly, Mark Saffman, Thomas A. Searles, Jeffrey H. Shapiro, Chandralekha Singh
2021	Misc	`conf`	Bioinformatics of corals: Investigating heterogeneous omics data from coral holobionts for insight into reef health and resillience. PSB Lenore J. Cowen, Judith Klein-Seetharaman, Hollie Putnam
2021	Misc	`conf`	Protein sequence models for prediction and comparative analysis of the SARS-CoV-2 - human interactome. PSB Meghana Kshirsagar, Nure Tasnina, Michael D. Ward, Jeffrey N. Law, T. M. Murali, Juan M. Lavista Ferres, Gregory R. Bowman, Judith Klein-Seetharaman
2017	J	`jnl`	Insulin biosensor development: a case study. Int. J. Parallel Emergent Distributed Syst. Narinder Sanghera, Alexander Anderson, Nick Nuar, Can Xie, Daniel Mitchell, Judith Klein-Seetharaman
2017	J	`jnl`	Multitask Matrix Completion for Learning Protein Interactions Across Diseases. J. Comput. Biol. Meghana Kshirsagar, Keerthiram Murugesan, Jaime G. Carbonell, Judith Klein-Seetharaman
2016	B	`conf`	Multitask Matrix Completion for Learning Protein Interactions Across Diseases. RECOMB Meghana Kshirsagar, Jaime G. Carbonell, Judith Klein-Seetharaman, Keerthiram Murugesan
2015	Misc	`conf`	Refining Literature Curated Protein Interactions Using Expert Opinions. Pacific Symposium on Biocomputing Öznur Tastan, Yanjun Qi, Jaime G. Carbonell, Judith Klein-Seetharaman
2013	J	`jnl`	Multitask learning for host-pathogen protein interactions. Bioinform. Meghana Kshirsagar, Jaime G. Carbonell, Judith Klein-Seetharaman
2012	J	`jnl`	BIPS: BIANA Interolog Prediction Server. A tool for protein-protein interaction inference. Nucleic Acids Res. Javier García-García, Sylvia Schleker, Judith Klein-Seetharaman, Baldo Oliva
2012	Misc	`conf`	Determining Confidence of Predicted Interactions Between HIV-1 and Human Proteins Using Conformal Method. Pacific Symposium on Biocomputing Ilia Nouretdinov, Alex Gammerman, Yanjun Qi, Judith Klein-Seetharaman
2012	J	`jnl`	Signal Processing in Genomics and Proteomics: Defining Its Role [From the Guest Editors]. IEEE Signal Process. Mag. Nevenka Dimitrova, Judith Klein-Seetharaman, Peter Beyerlein, Ahmed H. Tewfik
2012	J	`jnl`	Techniques to cope with missing data in host-pathogen protein interaction prediction. Bioinform. Meghana Kshirsagar, Jaime G. Carbonell, Judith Klein-Seetharaman
2011	J	`jnl`	Virus interactions with human signal transduction pathways. Int. J. Comput. Biol. Drug Des. Zhongming Zhao, Junfeng Xia, Öznur Tastan, Irtisha Singh, Meghana Kshirsagar, Jaime G. Carbonell, Judith Klein-Seetharaman
2010	—	`conf`	Analogies between structural and systems biology and systems-of-systems engineering in dynamic environments. SoSE Subhodeep Moitra, Naveena Yanamala, Öznur Tastan, Irtisha Singh, Christopher James Langmead, Judith Klein-Seetharaman
2010	—	`conf`	Comparison of virus interactions with human signal transduction pathways. BCB Irtisha Singh, Öznur Tastan, Judith Klein-Seetharaman
2010	J	`jnl`	Semi-supervised multi-task learning for predicting interactions between HIV-1 and human proteins. Bioinform. Yanjun Qi, Öznur Tastan, Jaime G. Carbonell, Judith Klein-Seetharaman, Jason Weston
2009	—	`conf`	Communication interception of human signal transduction pathways by Human Immunodeficiency Virus-1. GENSiPS Sivaraman Balakrishnan, Öznur Tastan, Jaime G. Carbonell, Judith Klein-Seetharaman
2009	Misc	`conf`	Prediction of Interactions Between HIV-1 and Human Proteins by Information Integration. Pacific Symposium on Biocomputing Öznur Tastan, Yanjun Qi, Jaime G. Carbonell, Judith Klein-Seetharaman
2008	J	`jnl`	Preferential binding of allosteric modulators to active and inactive conformational states of metabotropic glutamate receptors. BMC Bioinform. Naveena Yanamala, Kalyan C. Tirupula, Judith Klein-Seetharaman
2008	A	`conf`	Protein complex identification by supervised graph local clustering. ISMB Yanjun Qi, Fernanda Balem, Christos Faloutsos, Judith Klein-Seetharaman, Ziv Bar-Joseph
2008	J	`jnl`	Transmembrane helix prediction using amino acid property features and latent semantic analysis. BMC Bioinform. Madhavi Ganapathiraju, Narayanaswamy Balakrishnan, Raj Reddy, Judith Klein-Seetharaman
2007	J	`jnl`	A mixture of feature experts approach for protein-protein interaction prediction. BMC Bioinform. Yanjun Qi, Judith Klein-Seetharaman, Ziv Bar-Joseph
2007	J	`jnl`	TMpro web server and web service: transmembrane helix prediction through amino acid property analysis. Bioinform. Madhavi Ganapathiraju, Christopher Jon Jursa, Hassan A. Karimi, Judith Klein-Seetharaman
2006	—	`ch.`	Collaborative Discovery Through Biological Language Modeling Interface. Ambient Intelligence in Everyday Madhavi Ganapathiraju, Vijayalaxmi Manoharan, Raj Reddy, Judith Klein-Seetharaman
2005	C	`conf`	A Machine Text-Inspired Machine Learning Approach for Identification of Transmembrane Helix Boundaries. ISMIS Betty Yee Man Cheng, Jaime G. Carbonell, Judith Klein-Seetharaman
2005	J	`jnl`	BioSim--a biomedical character-based problem solving environment. Future Gener. Comput. Syst. Yang Cai, Ingo Snel, Betty Cheng, B. Suman Bharathi, Clementine Klein, Judith Klein-Seetharaman
2005	Misc	`conf`	Random Forest Similarity for Protein-Protein Interaction Prediction from Multiple Sources. Pacific Symposium on Biocomputing Yanjun Qi, Judith Klein-Seetharaman, Ziv Bar-Joseph
2004	—	`conf`	Ambient intelligence for scientific discovery. CHI Extended Abstracts Yang Cai, Judith Klein-Seetharaman
2004	J	`jnl`	Characterization of protein secondary structure. IEEE Signal Process. Mag. Madhavi K. Ganapathiraju, Judith Klein-Seetharaman, Narayanaswamy Balakrishnan, Raj Reddy
2004	J	`jnl`	Comparison of probabilistic combination methods for protein secondary structure prediction. Bioinform. Yan Liu, Jaime G. Carbonell, Judith Klein-Seetharaman, Vanathi Gopalakrishnan
2004	—	`conf`	Computational Biology and Language. Ambient Intelligence for Scientific Discovery Madhavi Ganapathiraju, Narayanas Balakrishnan, Raj Reddy, Judith Klein-Seetharaman
2004	A*	`conf`	Context sensitive vocabulary and its application in protein secondary structure prediction. SIGIR Yan Liu, Jaime G. Carbonell, Judith Klein-Seetharaman, Vanathi Gopalakrishnan
2004	Misc	`conf`	Identification of fundamental building blocks in protein sequences using statistical association measures. SAC Deborah K. Weisser, Judith Klein-Seetharaman
2003	Misc	`conf`	Towards Biomedical Problem Solving in a Game Environment. International Conference on Computational Science Yang Cai, Ingo Snel, B. Suman Bharathi, Clementine Klein, Judith Klein-Seetharaman