| 2022 | AAAI | Feature Importance Explanations for Temporal Black-Box Models. | Akshay Sood, Mark Craven |
| 2019 | AAAI | Understanding Learned Models by Identifying Important Features at the Right Resolution. | Kyubin Lee, Akshay Sood, Mark Craven |
| 2018 | RECOMB | Context-Specific Nested Effects Models. | Yuriy Sverchkov, Yi-Hsuan Ho, Audrey P. Gasch, Mark Craven |
| 2011 | CoNLL | Search-based Structured Prediction applied to Biomedical Event Extraction. | Andreas Vlachos, Mark Craven |
| 2011 | IJCAI | A Framework for Incorporating General Domain Knowledge into Latent Dirichlet Allocation Using First-Order Logic. | David Andrzejewski, Xiaojin Zhu, Mark Craven, Benjamin Recht |
| 2010 | CoNLL | Detecting Speculative Language Using Syntactic Dependencies and Logistic Regression. | Andreas Vlachos, Mark Craven |
| 2009 | ICML | Incorporating domain knowledge into topic modeling via Dirichlet Forest priors. | David Andrzejewski, Xiaojin Zhu, Mark Craven |
| 2008 | EMNLP | An Analysis of Active Learning Strategies for Sequence Labeling Tasks. | Burr Settles, Mark Craven |
| 2008 | ILP | Learning Expressive Models of Gene Regulation. | Mark Craven |
| 2008 | UAI | Learning Hidden Markov Models for Regression using Path Aggregation. | Keith Noto, Mark Craven |
| 2007 | ISMB | Connecting quantitative regulatory-network models to the genome. | Yue Pan, Tim Durfee, Joseph Bockhorst, Mark Craven |
| 2005 | ICML | Supervised versus multiple instance learning: an empirical comparison. | Soumya Ray, Mark Craven |
| 2004 | RECOMB | Learning Regulatory Network Models that Represent Regulator States and Roles. | Keith Noto, Mark Craven |
| 2003 | IJCAI | Hierarchical Hidden Markov Models for Information Extraction. | Marios Skounakis, Mark Craven, Soumya Ray |
| 2003 | ISMB | Predicting bacterial transcription units using sequence and expression data. | Joseph Bockhorst, Yu Qiu, Jeremy D. Glasner, Mingzhu Liu, Frederick R. Blattner, Mark Craven |
| 2003 | KDD | Evidence combination in biomedical natural-language processing. | Marios Skounakis, Mark Craven |
| 2002 | ICML | Exploiting Relations Among Concepts to Acquire Weakly Labeled Training Data. | Joseph Bockhorst, Mark Craven |
| 2001 | IJCAI | Refining the Structure of a Stochastic Context-Free Grammar. | Joseph Bockhorst, Mark Craven |
| 2001 | IJCAI | Representing Sentence Structure in Hidden Markov Models for Information Extraction. | Soumya Ray, Mark Craven |
| 1999 | ISMB | Constructing Biological Knowledge Bases by Extracting Information from Text Sources. | Mark Craven, Johan Kumlien |
| 1998 | AAAI | Learning to Extract Symbolic Knowledge from the World Wide Web. | Mark Craven, Dan DiPasquo, Dayne Freitag, Andrew McCallum, Tom M. Mitchell, Kamal Nigam, Sen Slattery |
| 1998 | ILP | Combining Statistical and Relational Methods for Learning in Hypertext Domains. | Sen Slattery, Mark Craven |
| 1995 | ISMB | Predicting Protein Folding Classes without Overly Relying on Homology. | Mark Craven, Richard J. Mural, Loren J. Hauser, Edward C. Uberbacher |