Mega-Classification: Discovering Motifs in Massive Datastreams. - Nomi L. Harris; Lawrence Hunter; David J. States (AAAI, 1992)

Efficient Classification of Massive, Unsegmented Datastreams. - Lawrence Hunter; Nomi L. Harris; David J. States (ML, 1992)

Bayesian Classification of Protein Structure. - Lawrence Hunter; David J. States (IEEE Expert, 1992)

Computationally Efficient Cluster Representation in Molecular Sequence Megaclassification. - David J. States; Nomi L. Harris; Lawrence Hunter (ISMB, 1993)

Information Enhancement Methods for Large Scale Sequence Analysis. - Jean-Michel Claverie; David J. States (Comput. Chem., 1993)

Motifs in Biology: Analysis of Ambiguous Data: Introduction. - Toni Kazic; David J. States; Lloyd Allison (HICSS (5), 1994)

The Repeat Pattern Toolkit (RPT): Analyzing the Structure and Evolution of the C. elegans Genome. - Pankaj Agarwal; David J. States (ISMB, 1994)

QGB: Combined Use of Sequence Similarity and Codon Bias for Coding Region Identification. - David J. States; Warren Gish (J. Comput. Biol., 1994)

Compact Encoding Strategies for DNA Sequence Similarity Search. - David J. States; Pankaj Agarwal (ISMB, 1996)

A Bayesian Evolutionary Distance for Parametrically Aligned Sequences. - Pankaj Agarwal; David J. States (J. Comput. Biol., 1996)

Sequence Assembly Validation by Multiple Restriction Digest Fragment Coverage Analysis. - Eric C. Rouchka; David J. States (ISMB, 1998)

A structure based similarity measure for nucleic acid sequence comparison. - Rongxiang Liu; Thomas W. Blackwell; David J. States (RECOMB, 1998)

Estimation of allele frequencies from color-multiplexed electropherograms. - David G. Politte; David R. Maffitt; David J. States (RECOMB, 1998)

Comparative accuracy of methods for protein sequence similarity search. - Pankaj Agarwal; David J. States (Bioinform., 1998)

Filter matrix estimation in automated DNA sequencing. - Weian Huang; Daniel R. Fuhrmann; David G. Politte; Lewis J. Thomas Jr.; David J. States (IEEE Trans. Biomed. Eng., 1998)

Identity by Descent Genome Segmentation Based on Single Nucleotide Polymorphism Distributions. - Thomas W. Blackwell; Eric C. Rouchka; David J. States (ISMB, 1999)

UTR Reconstruction and Analysis Using Genomically Aligned EST Sequences. - Zhengyan Kan; Warren Gish; Eric C. Rouchka; Jarret Glasscock; David J. States (ISMB, 2000)

Probabilistic approaches to the use of higher order clone relationships in physical map assembly. - David J. States; Volker Nowotny; Thomas W. Blackwell (ISMB (Supplement of Bioinformatics), 2001)

Conformational model for binding site recognition by the E.coli MetJ transcription factor. - Rongxiang Liu; Thomas W. Blackwell; David J. States (Bioinform., 2001)

Time to defend what we have won - David J. States (Bioinform., 2001)

ISMB 2005. - H. V. Jagadish; David J. States; Burkhard Rost (ISMB (Supplement of Bioinformatics), 2005)

ISMB 2005 Organization. - H. V. Jagadish; David J. States; Burkhard Rost (ISMB (Supplement of Bioinformatics), 2005)

Wnt pathway curation using automated natural language processing: combining statistical methods with partial and full parse for knowledge extraction. - Carlos Santos; Daniela Eggle; David J. States (Bioinform., 2005)

Probabilistic data integration and visualization for understanding transcriptional regulation. - Arvind Rao; Alfred O. Hero III; David J. States; James Douglas Engel (EUSIPCO, 2006)

Inference of Biologically Relevant Gene Influence Networks Using the Directed Information Criterion. - Arvind Rao; Alfred O. Hero III; David J. States; James Douglas Engel (ICASSP (2), 2006)

SAGA: a subgraph matching tool for biological graphs. - Yuanyuan Tian 001; Richard C. McEachin; Carlos Santos; David J. States; Jignesh M. Patel (Bioinform., 2007)

Inferring Time-Varying Network Topologies from Gene Expression Data. - Arvind Rao; Alfred O. Hero III; David J. States; James Douglas Engel (EURASIP J. Bioinform. Syst. Biol., 2007)

Motif Discovery in Tissue-Specific Regulatory Sequences Using Directed Information. - Arvind Rao; Alfred O. Hero III; David J. States; James Douglas Engel (EURASIP J. Bioinform. Syst. Biol., 2007)

Michigan Molecular Interactions (MiMI): putting the jigsaw puzzle together. - Magesh Jayapandian; Adriane Chapman; V. Glenn Tarcea; Cong Yu 001; Aaron Elkiss; Angela Ianni; Bin Liu 002; Arnab Nandi 001; Carlos Santos; Philip C. Andrews; Brian D. Athey; David J. States; et al. (Nucleic Acids Res., 2007)

Integration of Genome and Chromatin Structure with Gene Expression Profiles To Predict c-MYC Recognition Site Binding and Function. - Yili Chen; Thomas W. Blackwell; Ji Chen; Jing Gao; Angel W. Lee; David J. States (PLoS Comput. Biol., 2007)

Cytoscape ESP: simple search of complex biological networks. - Maital Ashkenazi; Gary D. Bader; Allan Kuchinsky; Menachem Moshelion; David J. States (Bioinform., 2008)

A bioinformatics analysis of the cell line nomenclature. - Sirarat Sarntivijai; Alexander S. Ade; Brian D. Athey; David J. States (Bioinform., 2008)

Blind men and elephants: What do citation summaries tell us about a research article? - Aaron Elkiss; Siwei Shen; Anthony Fader; Günes Erkan; David J. States; Dragomir R. Radev (J. Assoc. Inf. Sci. Technol., 2008)

Using Directed Information to Build Biologically Relevant Influence Networks. - Arvind Rao; Alfred O. Hero III; David J. States; James Douglas Engel (J. Bioinform. Comput. Biol., 2008)

Integrating and annotating the interactome using the MiMI plugin for cytoscape. - Jing Gao; Alexander S. Ade; V. Glenn Tarcea; Terry E. Weymouth; Barbara R. Mirel; H. V. Jagadish; David J. States (Bioinform., 2009)

SciMiner: web-based literature mining tool for target identification and functional enrichment analysis. - Junguk Hur; Adam D. Schuyler; David J. States; Eva L. Feldman (Bioinform., 2009)

MiSearch adaptive pubMed search tool. - David J. States; Alexander S. Ade; Zachary C. Wright; Aaron V. Bookvich; Brian D. Athey (Bioinform., 2009)

Michigan molecular interactions r2: from interacting proteins to pathways. - V. Glenn Tarcea; Terry E. Weymouth; Alexander S. Ade; Aaron V. Bookvich; Jing Gao; Vasudeva Mahavisno; Zach Wright; Adriane Chapman; Magesh Jayapandian; Arzucan Özgür; Yuanyuan Tian 001; James D. Cavalcoli; et al. (Nucleic Acids Res., 2009)

GLay: community structure analysis of biological networks. - Gang Su; Allan Kuchinsky; John H. Morris; David J. States; Fan Meng (Bioinform., 2010)

Understanding Distal transcriptional Regulation from Sequence, Expression and interactome Perspectives. - Arvind Rao; David J. States; Alfred O. Hero III; James Douglas Engel (J. Bioinform. Comput. Biol., 2010)

Metab2MeSH: annotating compounds with medical subject headings. - Maureen A. Sartor; Alexander S. Ade; Zach Wright; David J. States; Gilbert S. Omenn; Brian D. Athey; Alla Karnovsky (Bioinform., 2012)

CLO: The cell line ontology. - Sirarat Sarntivijai; Yu Lin; Zuoshuang Xiang; Terrence F. Meehan; Alexander D. Diehl; Uma D. Vempati; Stephan C. Schürer; Chao Pang; James Malone; Helen E. Parkinson; Yue Liu; Terue Takatsuki; et al. (J. Biomed. Semant., 2014)