Bioinformatics

Here is a list of publications that are related to our research in bioinformatics.

  1. Improved estimation of structure predictor quality.

    Kevin W. Deronne and George Karypis. BMC Structural Biology, 9:41, 2009.

  1. Mining Transcriptome Data for Function-Trait Relationship of Hyper Productivty of Recombinant Antibody.

    Salim Charaniya, George Karypis, and We-Shou Hu. Biotechnology & Bioengineering, Vol. 102, No. 6, pp. 1654-1669, 2009.

  1. Genome alignments using MPI-LAGAN.

    Ruinan Zhang, Huzefa Rangwala, and George Karypis. International Conference on Bioinformatics and Biomedicine, 2008.

  1. TOPTMH: Topology Predictor for Transmembrane a-Helices.

    Rezwan Ahmed, Huzefa Rangwala, and George Karypis. ECML-PKDD, 2008.

  1. Improving Homology Models for Protein-Ligand Binding Sites.

    Chris Kauffman, Huzefa Rangwala, and George Karypis. LSS Computational systems Bioinformatics Conference (CSB), 2008.

  1. Improved prediction of protein model quality.

    Kevin W. DeRonne and George Karypis. CSE TR# 08-002, 2008.

  1. An Analysis of Information Content Present in Protein-DNA Interactions.

    Chris Kauffman and George Karypis. Pacific Symposium on Biocomputing, 2008.

  1. fRMSDAlign: Protein Sequence Alignment Using Predicted Local Structure Information.

    Huzefa Rangwala and George Karypis. 6th Asia Pacific Bioinformatics Conference, 2008.

  1. Transcriptome dynamics-based operon prediction and verification in Streptomyces coelicolor.

    Salim Charaniya, Sarika Mehra, Wei Lian, Karthik P. Jayapal, George Karypis, Wei-Shou Hu. Nucleic Acids Research, 35(21):7222-36., 2007.

  1. A Generalized Framework for Protein Sequence Annotation.

    Huzefa Rangwala, Christopher Kauffman, and George Karypis. UMN TR# 07-023, 2007.

  1. Methods for Effective Virtual Screening and Scaffold-Hopping in Chemical Compounds.

    Nikil Wale and George Karypis. Computational Systems Biology (CSB), pp. 403-416, 2007.