Compressed Pattern Matching in DNA Sequences. - Lei Chen; Shiyong Lu; Jeffrey L. Ram (CSB, 2004)

Fast search in DNA sequence databases using punctuation and indexing. - Yi Lu 015; Shiyong Lu; Jeffrey L. Ram (ACST, 2006)

Computational Methods for Analysis of Cryptic Recombination in the Performance of Genomic Recombination Detection Software. - Jamal Alhiyafi; Cavitha Sabesan; Shiyong Lu; Melphine Harriott; Deborah Jurczyszyn; Raquel P. Ritchie; Felicitas S. Gonzales; Jeffrey L. Ram (AINA Workshops (1), 2007)

A Dataflow-Oriented Atomicity and Provenance System for Pipelined Scientific Workflows. - Liqiang Wang; Shiyong Lu; Xubo Fei; Jeffrey L. Ram (International Conference on Computational Science (3), 2007)

Bioinformatics Pipeline for Identification of Binding Motifs of Flexible Protein Tethers. - Jeffrey L. Ram; Yi Lu 015 (BIBM, 2009)

Atomicity and provenance support for pipelined scientific workflows. - Liqiang Wang; Shiyong Lu; Xubo Fei; Artem Chebotko; H. Victoria Bryant; Jeffrey L. Ram (Future Gener. Comput. Syst., 2009)

RECOMBFLOW: a scientific workflow environment for Intragenomic Gene Conversion analysis in bacterial genomes, including the pathogen Streptococcus pyogenes. - Jamal Alhiyafi; Cavitha Sabesan; Shiyong Lu; Jeffrey L. Ram (Int. J. Bioinform. Res. Appl., 2009)

Simulation of genomic recombination and the influence of DNA sequence diversity on cluster formation and detectability of recombination: a scientific workflow method. - Jamal Alhiyafi; Shiyong Lu; Jeffrey L. Ram (Int. J. Comput. Biol. Drug Des., 2009)

Association analysis between Intragenomic Gene Conversions and pathogenicity in genomes of Escherichia coli and Shigella spp.: a scientific workflow approach. - Jamal Alhiyafi; Cavitha Sabesan; Shiyong Lu; Jeffrey L. Ram (Int. J. Funct. Informatics Pers. Medicine, 2009)

Predictions of flexible C-terminal tethers of bacterial proteins with the FLEXTAIL bioinformatics pipeline. - Yi Lu 015; Jeffrey L. Ram (Int. J. Data Min. Bioinform., 2011)