Comparison of Two Variations of Neural Network Approaches to the Prediction of Protein Folding Pattern. - Inna Dubchak; Stephen R. Holbrook; Sung-Hou Kim (ISMB, 1993)

SCOR: a Structural Classification of RNA database. - Peter S. Klosterman; Makio Tamura; Stephen R. Holbrook; Steven E. Brenner (Nucleic Acids Res., 2002)

Contraction Graphs for Representation and Analysis of RNA Secondary Structure. - Chris H. Q. Ding; Richard F. Meraz; Xiaofeng He; Stephen R. Holbrook (CSB, 2004)

Positive Sample Only Learning (PSOL) for Predicting RNA Genes in E. coli. - Richard F. Meraz; Xiaofeng He; Chris H. Q. Ding; Stephen R. Holbrook (CSB, 2004)

SCOR: Structural Classification of RNA, version 2.0. - Makio Tamura; Donna K. Hendrix; Peter S. Klosterman; Nancy R. B. Schimmelman; Steven E. Brenner; Stephen R. Holbrook (Nucleic Acids Res., 2004)

Classification of Non-Coding RNA Using Graph Representations of Secondary Structure. - Yan Karklin; Richard F. Meraz; Stephen R. Holbrook (Pacific Symposium on Biocomputing, 2005)

Identification of Functional Modules in Protein Complexes via Hyperclique Pattern Discovery. - Hui Xiong 001; Xiaofeng He; Chris H. Q. Ding; Ya Zhang 002; Vipin Kumar 001; Stephen R. Holbrook (Pacific Symposium on Biocomputing, 2005)

Comparative mapping of sequence-based and structure-based protein domains. - Ya Zhang 002; John-Marc Chandonia; Chris H. Q. Ding; Stephen R. Holbrook (BMC Bioinform., 2005)

Biclustering Protein Complex Interactions with a Biclique Finding Algorithm. - Chris H. Q. Ding; Ya Zhang 002; Tao Li 001; Stephen R. Holbrook (ICDM, 2006)

PSoL: a positive sample only learning algorithm for finding non-coding RNA genes. - Chunlin Wang; Chris H. Q. Ding; Richard F. Meraz; Stephen R. Holbrook (Bioinform., 2006)

Transitive closure and metric inequality of weighted graphs: detecting protein interaction modules using cliques. - Chris H. Q. Ding; Xiaofeng He; Hui Xiong 001; Hanchuan Peng; Stephen R. Holbrook (Int. J. Data Min. Bioinform., 2006)

MeRNA: a database of metal ion binding sites in RNA structures. - Liliana R. Stefan; Rui Zhang 017; Aaron G. Levitan; Donna K. Hendrix; Steven E. Brenner; Stephen R. Holbrook (Nucleic Acids Res., 2006)

Terminator Detection by Support Vector Machine Utilizing a Stochastic Context-Free Grammar. - Patricia Francis-Lyon; Nello Cristianini; Stephen R. Holbrook (CIBCB, 2007)