| 2016 | AMIA | Protein Biomarker Discovery and Ranking for Early Detection of Necrotizing Enterocolitis in Neonates. | Subramani Mani, Daniel Cannon, Karri Ballard, Robin Ohls |
| 2015 | AMIA | Protein Drug Target Prioritization for Illumination. | Subramani Mani, Daniel Cannon, Tudor I. Oprea, Stephen L. Mathias, Oleg Ursu, Cristian Bologa |
| 2014 | AMIA | Genomic dark matter, druggability and misunderstood targets. | Subramani Mani, Joshua Swamidass, Noel Southall, Tudor I. Oprea |
| 2012 | AMIA | Type 2 Diabetes Risk Forecasting from EMR Data using Machine Learning. | Subramani Mani, Yukun Chen, Tom Elasy, Warren Clayton, Joshua C. Denny |
| 2009 | AMIA | Early Prediction of Reading Disability using Machine Learning. | Huseyin Atakan Varol, Subramani Mani, Donald L. Compton, Lynn S. Fuchs, Douglas Fuchs |
| 2007 | AIME | A Causal Modeling Framework for Generating Clinical Practice Guidelines from Data. | Subramani Mani, Constantin F. Aliferis |
| 2006 | UAI | A Theoretical Study of Y Structures for Causal Discovery. | Subramani Mani, Gregory F. Cooper, Peter Spirtes |
| 2001 | AISTATS | A Simulation Study of Three Related Causal Data Mining Algorithms. | Subramani Mani, Gregory F. Cooper |
| 2000 | AMIA | Causal discovery from medical textual data. | Subramani Mani, Gregory F. Cooper |
| 1999 | AAAI | Causal Discovery from Population-Based Infant Birth and Death Records. | Subramani Mani, Gregory F. Cooper |
| 1999 | AMIA | A study in causal discovery from population-based infant birth and death records. | Subramani Mani, Gregory F. Cooper |
| 1998 | AMIA | Guideline generation from data by induction of decision tables using a Bayesian network framework. | Subramani Mani, Michael J. Pazzani |
| 1997 | AIME | Knowledge Discovery from a Breast Cancer Database. | Subramani Mani, Michael J. Pazzani, John West |
| 1997 | AIME | Detecting Very Early Stages of Dementia from Normal Aging with Machine Learning Methods. | William Rodman Shankle, Subramani Mani, Michael J. Pazzani, Padhraic Smyth |
| 1997 | AMIA | Differential Diagnosis of Dementia: A Knowledge Discovery and Data Mining (KDD) Approach. | Subramani Mani, William Rodman Shankle, Michael J. Pazzani, Padhraic Smyth, Malcolm B. Dick |
| 1997 | KDD | Beyond Concise and Colorful: Learning Intelligible Rules. | Michael J. Pazzani, Subramani Mani, William Rodman Shankle |