Publications

Book

Papers

  • Lessons Learned in Replicating Data-Driven Experiments in Multiple Medical Systems and Patient Populations
    S. Kleinberg and N. Elhadad.
    AMIA Annual Symposium, 2013
    [pdf]
  • Causal Inference with Rare Events in Large-Scale Time-Series Data
    S. Kleinberg.
    International Joint Conference on Artificial Intelligence (IJCAI), 2013
    [pdf]
  • Nonconvulsive seizures after subarachnoid hemorrhage: multimodality detection and outcomes
    J. Claassen, A. Perotte, D. Albers, S. Kleinberg, J. M. Schmidt, B. Tu, N. Badjatia, H. Lantigua, L. J. Hirsch, S. A. Mayer, E. S. Connoly, and G. Hripcsak
    Annals of Neurology, 2013
    [pdf]
  • A review of causal inference for biomedical informatics
    S. Kleinberg and G. Hripcsak.
    Journal of Biomedical Informatics (JBI) (6):1102-1112, 2011
    [pdf] [ScienceDirect]
  • A Logic for Causal Inference in Time Series with Discrete and Continuous Variables
    S. Kleinberg.
    International Joint Conference on Artificial Intelligence (IJCAI), 2011
    [pdf]
  • Multiple Testing of Causal Hypotheses
    S. Kleinberg and B. Mishra.
    Causality in the Sciences, Oxford University Press 2011
    (P. M. Illari, F. Russo & J. Williamson eds.)
  • The Temporal Logic of Token Causes
    S. Kleinberg and B. Mishra.
    Principles of Knowledge Representation and Reasoning (KR), 2010
    Extended version: CIMS Technical Report TR2010-926
    [extended pdf]
  • Predicting malaria interactome classifications from time-course transcriptomic data along the intraerythrocytic developmental cycle
    A. Mitrofanova, S. Kleinberg, J. Carlton, S. Kasif, and B. Mishra.
    Artificial Intelligence in Medicine 49(3):167-176, 2010
    [ScienceDirect] [bibtex]
  • Metamorphosis: The Coming Transformation of Translational Systems Biology
    S. Kleinberg and B. Mishra.
    ACM Queue, 2009
    [pdf] [bibtex]
  • The Temporal Logic of Causal Structures
    S. Kleinberg and B. Mishra.
    Uncertainty in Artificial Intelligence (UAI), 2009
    [pdf] [bibtex] [Supplementary material]
  • Systems Biology via Redescription and Ontologies (III): Protein Classification using Malaria Parasite's Temporal Transcriptomic Profiles
    A. Mitrofanova, S. Kleinberg, J. Carlton, S. Kasif, and B. Mishra
    IEEE BIBM 2008
    [bibtex]
  • Systems Biology via Redescription and Ontologies (II): A Tool for Discovery in Complex Systems
    S. Kleinberg, M. Antoniotti, S. Tadepalli, N. Ramakrishnan and B. Mishra
    Unifying Themes in Complex Systems, Volume VI: Proceedings of the Sixth International Conference on Complex Systems, 2008
    [pdf]
  • Systems Biology via Redescription and Ontologies (I): finding phase changes with applications to malaria temporal data
    S. Kleinberg, K. Casey, and B. Mishra
    Systems and Synthetic Biology (SSB) 1(4):197-205, December 2007
    [pdf] [Springer] [bibtex]
  • Modal Logic, Temporal Models and Neural Circuits: What Connects Them
    S. Kleinberg, M. Antoniotti, N. Ramakrishnan, and B. Mishra
    CIMS Technical Report TR2007-907
    [pdf]
  • Systems Biology via Redescription and Ontologies: Untangling the Malaria Parasite Life Cycle
    S. Kleinberg, K. Casey, and B. Mishra
    LSMS 07, Shanghai, China, September 14-17, 2007
  • Remembrance of Experiments Past: A Redescription Based Tool for Discovery in Complex System
    S. Kleinberg, M. Antoniotti, S. Tadepalli, N. Ramakrishnan and B. Mishra
    Interational Conference on Complex Systems, Quincy, MA, June 2006

Abstracts and Posters

  • "Causal Inference under Uncertainty via Adjustments and SOPDs" (D. Hutchison and S. Kleinberg) Causality and Experimentation in the Sciences, Paris, FR, 2013
  • "Quantifying the Impact of Rare Causes" (S. Kleinberg) Evidence and Causality in the Sciences, Canterbury, UK, 2012
  • "Using NICU Data to understand Physiology and Identify Damage in Patients with Acute Brain Injury" (D. Albers, J. Claassen, A. Perotte, S. Kleinberg, and G. Hripcsak) AMIA TBI, San Francisco, 2012
  • "Automated Temporal Causal Inference from EHR Data" (S. Kleinberg and G. Hripcsak) AMIA TBI (podium abstract), San Francisco, 2012.
  • "Temporal Token Causal Explanation" (S. Kleinberg) Causality and Explanation in the Sciences, Ghent, BE, 2011.
  • "Understanding variable representation for causal inference in EHRs" (S. Kleinberg and G. Hripcsak) AMIA TBI, San Francisco, 2011.
  • "A causal understanding of electronic health records" (S. Kleinberg) Causality in the Biomedical and Social Sciences, Rotterdam, NL 2010
  • "Multiple Testing of Causal Hypotheses"(S. Kleinberg and B. Mishra) CAPITS 2008 Causality Study Fortnight, Canterbury, UK, September 8-19.
  • "PSST: A web-based system for tracking political statements" (S. Kleinberg and B. Mishra) WWW 2008 Beijing, China.
  • "Logic in the Time of Malaria: Segmenting Time Course Data to Understand the Plasmodium Falciparum Life Cycle" (S. Kleinberg, K. Casey, and B. Mishra), APBC 08, Kyoto, Japan, January 14-17, 2008.
  • "CLARITY: Algorithms for Semantic Comparison of Time-course Transcriptomic Data," (S. Kleinberg and B. Mishra), International Symposium on Computational Biology & Bioinformatics: ISBB 06, Bhubaneswar, India, December 15-17, 2006.