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Ishanu Chattopadhyay

TitleAssistant Professor
InstitutionUniversity of Chicago
DepartmentMedicine-Hospital Medicine
AddressChicago IL 60637
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    Collapse Overview 
    Collapse overview
    Ishanu Chattopadhyay’s research focuses on the theory of unsupervised machine learning and the interplay of stochastic processes and formal language theory in exploring the mathematical underpinnings of the question of inferring causality from data. His most visible contributions include the algorithms for data smashing, inverse Gillespie inference, and nonparametric nonlinear and zero-knowledge implementations of Granger causal analysis that have crucial implications for biomedical informatics, data-enabled discovery in biomedicine, and personalized precision health care. His current work focuses on analyzing massive clinical databases of disparate variables to distill patterns indicative of hitherto unknown etiologies, dependencies, and relationships, potentially addressing the daunting computational challenge of scale and making way for ab initio and de novo modeling in an age of ubiquitous data.

    Chattopadhyay received an MS and PhD in mechanical engineering, as well as an MA in mathematics, from the Pennsylvania State University. He completed his postdoctoral training and served as a research associate in the Department of Mechanical Engineering at Penn State. He also held a postdoctoral fellowship simultaneously at the Department of Computer Science and the Sibley School of Mechanical and Aerospace Engineering at Cornell University.

    Collapse Biography 
    Collapse education and training
    Cornell University, NYPostdoctoral Fellow2013Machine Learning
    The Pennsylvania State University, PAPostdoctoral Fellow2011Robotics & Automated Decision-making
    The Pennsylvania State University, PAPhD2006Mechanical Engineering
    The Pennsylvania State University, PAMA2006Mathematics
    The Pennsylvania State University, PAMS2005Mechanical Engineering
    Collapse awards and honors
    2020 - 2020Young Faculty Award, DARPA

    Collapse Research 
    Collapse research activities and funding
    FP064753-01-PR-CR-01     (Ishanu Chattopadhyay)Jun 29, 2017 - Jun 29, 2021
    ZeD: Zero-Knowledge Discovery Using Data Smashing - Columbia Sub
    Role Description: Automate machine learning pipelines, and design new learning primitives, to achieve transformative breakthroughs in automated problem solving.
    Role: PI

    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
    Newest   |   Oldest   |   Most Cited   |   Most Discussed   |   Timeline   |   Field Summary   |   Plain Text
    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Montesi SB, Gomez CR, Beers M, Brown R, Chattopadhyay I, Flaherty KR, Garcia CK, Gomperts B, Hariri LP, Hogaboam CM, Jenkins RG, Kaminski N, Kim GHJ, Königshoff M, Kolb M, Kotton DN, Kropski JA, Lasky J, Magin CM, Maher TM, McCormick M, Moore BB, Nickerson-Nutter C, Oldham J, Podolanczuk AJ, Raghu G, Rosas I, Rowe SM, Schmidt WT, Schwartz D, Shore JE, Spino C, Craig M, Martinez FJ, Montesi SB, Gomez CR, Beers M, Brown R, Chattopadhyay I, Flaherty KR, Garcia CK, Gomperts B, Hariri LP, Hogaboam CM, Jenkins RG, Kaminski N, Kim GHJ, Königshoff M, Kolb M, Kotton DN, Kropski JA, Lasky J, Magin CM, Maher TM, McCormick M, Moore BB, Nickerson-Nutter C, Oldham J, Podolanczuk AJ, Raghu G, Rosas I, Rowe SM, Schmidt WT, Schwartz D, Shore JE, Spino C, Craig JM, Martinez FJ. Pulmonary Fibrosis Stakeholder Summit: A Joint NHLBI, Three Lakes Foundation, and Pulmonary Fibrosis Foundation Workshop Report. Am J Respir Crit Care Med. 2024 Feb 15; 209(4):362-373. PMID: 38113442; PMCID: PMC10878386.
      Citations:    Fields:    Translation:Humans
    2. Clementz BA, Chattopadhyay I, Trotti RL, Parker DA, Gershon ES, Hill SK, Ivleva EI, Keedy SK, Keshavan MS, McDowell JE, Pearlson GD, Tamminga CA, Gibbons RD. Clinical characterization and differentiation of B-SNIP psychosis Biotypes: Algorithmic Diagnostics for Efficient Prescription of Treatments (ADEPT)-1. Schizophr Res. 2023 10; 260:143-151. PMID: 37657281; PMCID: PMC10712427.
      Citations:    Fields:    Translation:Humans
    3. Cero I, Wyman PA, Chattopadhyay I, Gibbons RD. Predictive Equity in Suicide Risk Screening. J Acad Consult Liaison Psychiatry. 2023 Jul-Aug; 64(4):336-339. PMID: 37001640.
      Citations:    Fields:    Translation:Humans
    4. Ginder C, Li J, Halperin JL, Akar JG, Martin DT, Chattopadhyay I, Upadhyay GA. Predicting Malignant Ventricular Arrhythmias Using Real-Time Remote Monitoring. J Am Coll Cardiol. 2023 03 14; 81(10):949-961. PMID: 36889873.
      Citations: 2     Fields:    Translation:Humans
    5. Chattopadhyay I. Efficient Determination of Social Determinants of Health From Clinical Notes for Timely Identification of Suicidality Among US Veterans. JAMA Netw Open. 2023 03 01; 6(3):e233086. PMID: 36920398.
      Citations:    Fields:    Translation:Humans
    6. Onishchenko D, Marlowe RJ, Ngufor CG, Faust LJ, Limper AH, Hunninghake GM, Martinez FJ, Chattopadhyay I. Screening for idiopathic pulmonary fibrosis using comorbidity signatures in electronic health records. Nat Med. 2022 10; 28(10):2107-2116. PMID: 36175678.
      Citations: 5     Fields:    Translation:Humans
    7. Onishchenko D, Rubin DS, van Horne JR, Ward RP, Chattopadhyay I. Cardiac Comorbidity Risk Score: Zero-Burden Machine Learning to Improve Prediction of Postoperative Major Adverse Cardiac Events in Hip and Knee Arthroplasty. J Am Heart Assoc. 2022 08 02; 11(15):e023745. PMID: 35904198; PMCID: PMC9375497.
      Citations:    Fields:    Translation:Humans
    8. Rotaru V, Huang Y, Li T, Evans J, Chattopadhyay I. Event-level prediction of urban crime reveals a signature of enforcement bias in US cities. Nat Hum Behav. 2022 08; 6(8):1056-1068. PMID: 35773401.
      Citations: 2     Fields:    Translation:Humans
    9. Huang Y, Chattopadhyay I. Universal risk phenotype of US counties for flu-like transmission to improve county-specific COVID-19 incidence forecasts. PLoS Comput Biol. 2021 10; 17(10):e1009363. PMID: 34648492; PMCID: PMC8516313.
      Citations: 2     Fields:    Translation:Humans
    10. Onishchenko D, Huang Y, van Horne J, Smith PJ, Msall ME, Chattopadhyay I. Reduced false positives in autism screening via digital biomarkers inferred from deep comorbidity patterns. Sci Adv. 2021 Oct 08; 7(41):eabf0354. PMID: 34613766; PMCID: PMC8494294.
      Citations: 6     Fields:    
    11. Chattopadhyay I, Boxx GM, Fraley ER, Silva TK, Zhou M, Phan M, Herrera I, Taloma S, Mandanas R, Bach K, Gandal M, Geschwind DH, Cheng G, Rzhetsky A, White SA, Silva AJ, López-Aranda MF. Postnatal immune activation causes social deficits in a mouse model of tuberous sclerosis: Role of microglia and clinical implications. Sci Adv. 2021 Sep 17; 7(38):eabf2073. PMID: 34533985; PMCID: PMC8448451.
      Citations: 8     Fields:    
    12. Brenner LA, Betthauser LM, Penzenik M, Germain A, Li JJ, Chattopadhyay I, Frank E, Kupfer DJ, Gibbons RD. Development and Validation of Computerized Adaptive Assessment Tools for the Measurement of Posttraumatic Stress Disorder Among US Military Veterans. JAMA Netw Open. 2021 07 01; 4(7):e2115707. PMID: 34236411; PMCID: PMC8267606.
      Citations: 1     Fields:    Translation:HumansPHPublic Health
    13. Gibbons RD, Chattopadhyay I, Meltzer HY, Kane JM, Guinart D. Development of a computerized adaptive diagnostic screening tool for psychosis. Schizophr Res. 2022 07; 245:116-121. PMID: 33836922; PMCID: PMC8492780.
      Citations: 2     Fields:    Translation:Humans
    14. Jia G, Li Y, Zhang H, Chattopadhyay I, Boeck Jensen A, Blair DR, Davis L, Robinson PN, Benson M, Edgren G, Cox NJ, Gao X, Rzhetsky A, Dahlén T, Brunak S. Estimating heritability and genetic correlations from large health datasets in the absence of genetic data. Nat Commun. 2019 12 03; 10(1):5508. PMID: 31796735; PMCID: PMC6890770.
      Citations: 8     Fields:    Translation:Humans
    15. Chattopadhyay I, Kiciman E, Elliott JW, Shaman JL, Rzhetsky A. Conjunction of factors triggering waves of seasonal influenza. Elife. 2018 02 27; 7. PMID: 29485041; PMCID: PMC5864297.
      Citations: 21     Fields:    Translation:HumansCellsPHPublic Health
    16. . Algorithmic Bio-surveillance For Precise Spatio-temporal Prediction of Zoonotic Emergence. arXiv:1801.07807. 2018. View Publication.
    17. Chattopadhyay I, Lipson H. Data smashing: uncovering lurking order in data. J R Soc Interface. 2014 Dec 06; 11(101):20140826. PMID: 25401180; PMCID: PMC4223903.
      Citations: 5     Fields:    Translation:Humans
    18. . Causality Networks. arXiv:1406.6651v1. 2014. View Publication.
    19. Chattopadhyay I, Kuchina A, Lipson H, Süel GM. Inverse Gillespie for inferring stochastic reaction mechanisms from intermittent samples. Proc Natl Acad Sci U S A. 2013 Aug 06; 110(32):12990-5. PMID: 23878234; PMCID: PMC3740874.
      Citations: 2     Fields:    
    20. Chattopadhyay I, Lipson H. Abductive learning of quantized stochastic processes with probabilistic finite automata. Philos Trans A Math Phys Eng Sci. 2013 Feb 13; 371(1984):20110543. PMID: 23277601.
      Citations: 6     Fields:    
    21. Chattopadhyay I, Ray A. Supervised self-organization of homogeneous swarms using ergodic projections of Markov chains. IEEE Trans Syst Man Cybern B Cybern. 2009 Dec; 39(6):1505-15. PMID: 19447731.
      Citations: 1     Fields:    
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