A Simplified Theory of Tense Representations and Constraints on their Composition. - Michael R. Brent (ACL, 1990)

Automatic Acquisition of Subcategorization Frames from Untagged Text. - Michael R. Brent (ACL, 1991)

Automatic Semantic Classification Of Verbs From Their Syntactic Contexts: An Implemented Classifier For Stativity. - Michael R. Brent (EACL, 1991)

Automatic Acquisition of Subcategorization Frames from Tagged Text. - Michael R. Brent; Robert C. Berwick (HLT, 1991)

From Grammar to Lexicon: Unsupervised Learning of Lexical Syntax. - Michael R. Brent (Comput. Linguistics, 1993)

Segmenting Speech Without a Lexicon: The Roles of Phonotactics and Speech Source. - Timothy A. Cartwright; Michael R. Brent (SIGMORPHON, 1994)

Lexical categorization: fitting template grammars by incremental MDL optimization. - Michael R. Brent; Timothy A. Cartwright (ICGI, 1996)

An Efficient, Probabilistically Sound Algorithm for Segmentation and Word Discovery. - Michael R. Brent (Mach. Learn., 1999)

Chinese Text Segmentation With MBDP-1: Making the Most of Training Corpora. - Michael R. Brent; Xiaopeng Tao (ACL, 2001)

A Bayesian Model for Morpheme and Paradigm Identification. - Matthew G. Snover; Michael R. Brent (ACL, 2001)

Integrating genomic homology into gene structure prediction. - Ian Korf; Paul Flicek; Daniel Duan; Michael R. Brent (ISMB (Supplement of Bioinformatics), 2001)

A Probabilistic Model for Learning Concatenative Morphology. - Matthew G. Snover; Michael R. Brent (NIPS, 2002)

Unsupervised Learning of Morphology Using a Novel Directed Search Algorithm: Taking the First Step. - Matthew G. Snover; Gaja Jarosz; Michael R. Brent (SIGMORPHON, 2002)

Eval: A software package for analysis of genome annotations. - Evan Keibler; Michael R. Brent (BMC Bioinform., 2003)

Gene finding in the chicken genome. - Eduardo Eyras; Alexandre Reymond; Robert Castelo; Jacqueline M. Bye; Francisco Camara; Paul Flicek; Elizabeth J. Huckle; Genis Parra; David D. Shteynberg; Carine Wyss; Jane Rogers; Stylianos E. Antonarakis; et al. (BMC Bioinform., 2005)

Using ESTs to improve the accuracy of de novo gene prediction. - Chaochun Wei; Michael R. Brent (BMC Bioinform., 2006)

Using Multiple Alignments to Improve Gene Prediction. - Samuel S. Gross; Michael R. Brent (J. Comput. Biol., 2006)

The Treeterbi and Parallel Treeterbi algorithms: efficient, optimal decoding for ordinary, generalized and pair HMMs. - Evan Keibler; Manimozhiyan Arumugam; Michael R. Brent (Bioinform., 2007)

CRF-OPT: An Efficient High-Quality Conditional Random Field Solver. - Minmin Chen; Yixin Chen 001; Michael R. Brent (AAAI, 2008)

Gradient-Based Feature Selection for Conditional Random Fields and its Applications in Computational Genetics. - Minmin Chen; Yixin Chen 001; Michael R. Brent; Aaron E. Tenney (ICTAI, 2009)

Constrained optimization for validation-guided conditional random field learning. - Minmin Chen; Yixin Chen 001; Michael R. Brent; Aaron E. Tenney (KDD, 2009)

Benchmarking regulatory network reconstruction with GRENDEL. - Brian C. Haynes; Michael R. Brent (Bioinform., 2009)

Pairagon: a highly accurate, HMM-based cDNA-to-genome aligner. - David V. Lu; Randall H. Brown; Manimozhiyan Arumugam; Michael R. Brent (Bioinform., 2009)

A Quantitative Model of Glucose Signaling in Yeast Reveals an Incoherent Feed Forward Loop Leading to a Specific, Transient Pulse of Transcription. - Sooraj KuttyKrishnan; Jeffrey Sabina; Laura Langton; Mark Johnston; Michael R. Brent (RECOMB, 2011)

Model-based Transcriptome Engineering. - Michael R. Brent (BCB, 2017)

NetProphet 2.0: mapping transcription factor networks by exploiting scalable data resources. - Yiming Kang; Hien-Haw Liow; Ezekiel J. Maier; Michael R. Brent (Bioinform., 2018)

Inferring TF activities and activity regulators from gene expression data with constraints from TF perturbation data. - Cynthia Z. Ma; Michael R. Brent (Bioinform., 2021)

NetProphet 3: a machine learning framework for transcription factor network mapping and multi-omics integration. - Dhoha Abid; Michael R. Brent (Bioinform., 2023)