Received: 27 December 2016 | Accepted: 13 January 2017 | Published: 24 February 2017 | DOI: https://doi.org/10.1038/bcj.2017.12 Chavan SS, He J, Tytarenko R, Deshpande S, Patel P, Bailey M, Stein CK, Stephens O, Weinhold N, Petty N, Stewart D, Rasche L, Bauer M, Ashby C, Peterson EA, Ali S, Ross J, Miller VA, Stephens P, […]
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GSAR: Bioconductor package for Gene Set analysis in R
BMC Bioinformatics BMC series | DOI: https://doi.org/10.1186/s12859-017-1482-6 Yasir Rahmatallah, Boris Zybailov, Frank Emmert-Streib, Galina Glazko Abstract Gene set analysis (in a form of functionally related genes or pathways) has become the method of choice for analyzing omics data in general and gene expression data in particular. There are many statistical methods that either summarize gene-level […]
Viral Phylogenomics Using an Alignment-Free Method: A Three-Step Approach to Determine Optimal Length of k-mer
Sci Rep. 2017 Jan 19;7:40712. doi: 10.1038/srep40712. PubMed PMID: 28102365; PubMed Central PMCID: PMC5244389 Qian Zhang, Se-Ran Jun, Michael Leuze, David Ussery & Intawat Nookaew Abstract The development of rapid, economical genome sequencing has shed new light on the classification of viruses. As of October 2016, the National Center for Biotechnology Information (NCBI) database contained […]
Integrated omics analyses reveal the details of metabolic adaptation of Clostridium thermocellum to lignocellulose-derived growth inhibitors released during the deconstruction of switchgrass
Biotechnology for Biofuels | 2017 | DOI: https://doi.org/10.1186/s13068-016-0697-5 Suresh Poudel, Richard J. Giannone, Miguel Rodriguez Jr., Babu Raman, Madhavi Z. Martin, Nancy L. Engle, Jonathan R. Mielenz, Intawat Nookaew, Steven D. Brown, Timothy J. Tschaplinski, David Ussery, Robert L. Hettich Abstract Clostridium thermocellum is capable of solubilizing and converting lignocellulosic biomass into ethanol. Although much of the work-to-date has […]
Splenic Immune Response Is Down-Regulated in C57BL/6J Mice Fed Eicosapentaenoic Acid and Docosahexaenoic Acid Enriched High Fat Diet
Nutrients 2017, 9(1), 50; https://doi.org/10.3390/nu9010050 Nikul K. Soni, Ross AB, Scheers N, Otto I. Savolainen, Intawat Nookaew, Britt G. Gabrielsson, Sandberg Anne Sofie Abstract Dietary n-3 fatty acids eicosapentaenoic acid (EPA) and docosahexaenoic acid (DHA) are associated with reduction of inflammation, although the mechanisms are poorly understood, especially how the spleen, as a secondary lymphoid […]
Clinical Informatics Board Prep Course
Course Description This is a multi-module, lecture series with new modules available each week. This Board prep provides exposure to topics on the clinical informatics subspeciality board examination. Lectures highlight relevant informatics and information science principles and methodology. Course Objectives Upon successful completion of this course, the student is able to: Discuss advances in medical research and […]
PanViz: Interactive Visualization of the Structure of Functionally Annotated Pangenomes
Bioinformatics. 2017 Jan 5. pii: btw761. doi: 10.1093/bioinformatics/btw761. [Epub ahead of print] PubMed PMID: 28057677 Pedersen TL, Nookaew I, Wayne Ussery D, Månsson M. Summary PanViz is a novel, interactive, visualization tool for pangenome analysis. PanViz allows visualization of changes in gene group (groups of similar genes across genomes) classification as different subsets of pangenomes […]
Showcase Highlights Power of Biomedical Informatics
Researchers from all disciplines can put the power of biomedical informatics to work for them, and the results of that collaborative spirit were on display at a recent reception at UAMS. Fourteen research projects were featured at the Showcase of Medical Discoveries: Biomedical Informatics Research, held Sept. 21 at the UAMS Winthrop P. Rockefeller Cancer […]
UAMS Becomes Home to Cancer Imaging Archive for NCI
The University of Arkansas for Medical Sciences (UAMS) has become home to The Cancer Imaging Archive of the National Cancer Institute (NCI) with the transfer to UAMS of more than 40 terabytes of data from the archive’s former home at Washington University in St. Louis. “Through the archive, UAMS has important linkages to all […]
Fred Prior, Ph.D, named inaugural chair of the Department of Biomedical Informatics
LITTLE ROCK — Fred Prior, Ph.D, has been named the inaugural chair of the Department of Biomedical Informatics in the University of Arkansas for Medical Sciences (UAMS) College of Medicine, effective Oct. 1. The newly established department develops computational tools to assess and manage medical and public health information for patient care and research programs. […]