| 2017 | SP | Malware Detection by Analysing Network Traffic with Neural Networks. | Paul Prasse, Luks Machlica, Toms Pevn, Jir Havelka, Tobias Scheffer |
| 2007 | ACL | Beyond Projectivity: Multilingual Evaluation of Constraints and Measures on Non-Projective Structures. | Jir Havelka |
| 2007 | EMNLP | Log-Linear Models of Non-Projective Trees, $k$-best MST Parsing and Tree-Ranking. | Keith B. Hall, Jir Havelka, David A. Smith |
| 2007 | NAACL | Relationship between Non-Projective Edges, Their Level Types, and Well-Nestedness. | Jir Havelka |
| 2005 | EAMT | Prague Czech-English dependency treebank: resource for structure-based MT. | Martin Cmejrek, Jan Curn, Jan Hajic, Jir Havelka |
| 2004 | COLING | Condition of Projectivity in the Underlying Dependency Structures. | Katerina Vesela, Jir Havelka, Eva Hajicov |
| 2004 | IJCNLP | Building a Parallel Bilingual Syntactically Annotated Corpus. | Jan Curn, Martin Cmejrek, Jir Havelka, Vladislav Kubon |
| 2004 | LREC | Prague Czech-English Dependency Treebank. Syntactically Annotated Resources for Machine Translation. | Martin Cmejrek, Jan Curn, Jir Havelka, Jan Hajic, Vladislav Kubon |
| 2004 | LREC | Annotators' Agreement: The Case of Topic-Focus Articulation. | Katerina Vesela, Jir Havelka, Eva Hajicov |
| 2004 | NAACL | Prague Czech-English Dependency Treebank: Any Hopes for a Common Annotation Scheme? | Martin Cmejrek, Jan Curn, Jir Havelka |
| 2003 | EACL | Czech-English Dependency Tree-based Machine Translation. | Martin Cmejrek, Jan Curn, Jir Havelka |