| 2006 | ICASSP | Inference of Biologically Relevant Gene Influence Networks Using the Directed Information Criterion. | Arvind Rao, Alfred O. Hero III, David J. States, James Douglas Engel |
| 2005 | ISMB | ISMB 2005. | H. V. Jagadish, David J. States, Burkhard Rost |
| 2005 | ISMB | ISMB 2005 Organization. | H. V. Jagadish, David J. States, Burkhard Rost |
| 2001 | ISMB | Probabilistic approaches to the use of higher order clone relationships in physical map assembly. | David J. States, Volker Nowotny, Thomas W. Blackwell |
| 2000 | ISMB | UTR Reconstruction and Analysis Using Genomically Aligned EST Sequences. | Zhengyan Kan, Warren Gish, Eric C. Rouchka, Jarret Glasscock, David J. States |
| 1999 | ISMB | Identity by Descent Genome Segmentation Based on Single Nucleotide Polymorphism Distributions. | Thomas W. Blackwell, Eric C. Rouchka, David J. States |
| 1998 | ISMB | Sequence Assembly Validation by Multiple Restriction Digest Fragment Coverage Analysis. | Eric C. Rouchka, David J. States |
| 1998 | RECOMB | A structure based similarity measure for nucleic acid sequence comparison. | Rongxiang Liu, Thomas W. Blackwell, David J. States |
| 1998 | RECOMB | Estimation of allele frequencies from color-multiplexed electropherograms. | David G. Politte, David R. Maffitt, David J. States |
| 1996 | ISMB | Compact Encoding Strategies for DNA Sequence Similarity Search. | David J. States, Pankaj Agarwal |
| 1994 | ISMB | The Repeat Pattern Toolkit (RPT): Analyzing the Structure and Evolution of the C. elegans Genome. | Pankaj Agarwal, David J. States |
| 1993 | ISMB | Computationally Efficient Cluster Representation in Molecular Sequence Megaclassification. | David J. States, Nomi L. Harris, Lawrence Hunter |
| 1992 | AAAI | Mega-Classification: Discovering Motifs in Massive Datastreams. | Nomi L. Harris, Lawrence Hunter, David J. States |
| 1992 | ICML | Efficient Classification of Massive, Unsegmented Datastreams. | Lawrence Hunter, Nomi L. Harris, David J. States |