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Lonnie R. Welch, Stuckey Professor

Lonnie R. Welch

Professor Lonnie R. Welch received a Ph.D. in Computer and Information Science from the Ohio State University. Currently, he is the Stuckey Professor of Electrical Engineering and Computer Science at Ohio University, and he is a member of the Graduate Faculties of the Biomedical Engineering Program and of the Molecular and Cellular Biology Program.  Dr. Welch performs research in the areas of bioinformatics, computational regulatory genomics, machine learning and high performance computing.  His research has been sponsored by the National Human Genome Research Institute, the Ohio Plant Biotechnology Consortium, NASA, the National Science Foundation, the Defense Advanced Research Projects Agency, and the Ohio Board of Regents.  Dr. Welch has more than twenty years of research experience in the area of high performance computing.  His research produced three successive generations of adaptive resource management middleware for high performance real-time systems, and resulted in four patents and more than 150 publications. Currently, Professor Welch directs the Bioinformatics Laboratory at Ohio University, where he performs research in the area of computational regulatory genomics.  He is the founder and Chair of the Great Lakes Bioinformatics Conference (an official conference of the International Society on Computational Biology).  Dr. Welch is the Founding Chair of ISCB's Great Lakes Bioinformatics Consortium, and he serves on the ISCB's Board of Directors, Education Committee (Co-Chair), and Conferences Committee. He is the Principal Investigator of the Ohio Board of Regents Bioinformatics Scholarship Program.

Complete CV

The Great Lakes Bioinformatics Conference

ISMB Special Interest Group on Bioinformatics for Regulatory Genomics (BioRegSIG)

SCPE: Scalable Computing: Practice and Experience

Bioinformatics Journal Club

Selected Publications

  1. Advances in Genomic Sequence Analysis and Pattern Discovery (Science, Engineering, and Biology Informatics).
    Laura Elnitski (Editor), Helen Piontkivska (Editor), Lonnie R. Welch (Editor).
    World Scientific Publishing Company. 2011 Jan 17.

  2. WordSeeker: Concurrent bioinformatics software for discovering genome-wide patterns and word-based genomic signatures.
    Jens Lichtenberg, Kyle Kurz, Xiaoyu Liang, Rami Al-ouran, Lev Neiman, Lee J Nau, Joshua D Welch, Edwin Jacox, Thomas Bitterman, Klaus Ecker, Laura Elnitski, Frank Drews, Stephen Sauchi Lee, Lonnie R Welch.
    BMC Bioinformatics, 2010, 11(Suppl 12):S6.

  3. Genome-wide detection of a TFIID localization element from an initial human disease mutation.
    Yang MQ, Laflamme K, Gotea V, Joiner CH, Seidel NE, Wong C, Petrykowska HM, Lichtenberg J, Lee S, Welch L, Gallagher PG, Bodine DM, Elnitski L.
    Nucleic Acids Res. 2010 Nov 11.

  4. AGRIS: the Arabidopsis Gene Regulatory Information Server, an update.
    Yilmaz A, Mejia-Guerra MK, Kurz K, Liang X, Welch L, Grotewold E.
    Nucleic Acids Res. 2010 Nov 8.

  5. Regulatory network nodes of check point factors in DNA repair pathways.
    Laura Elnitski, Jens Lichtenberg, Lonnie R. Welch.
    BCB '10: Proceedings of the First ACM International Conference on Bioinformatics and Computational Biology 529-536. 2010 Aug.

  6. A bioinformatics approach to the identification, classification, and analysis of hydroxyproline-rich glycoproteins.
    Showalter AM, Keppler B, Lichtenberg J, Gu D, Welch LR.
    Plant Physiology 153:485-513. 2010

  7. Scalable parallel word search in multicore/multiprocessor systems.
    Frank Drews, Jens Lichtenberg, Lonnie Welch.
    The Journal of Supercomputing Volume 51, Number 1, 58-75
    . 2010 Jan.

  8. An integrated bioinformatics approach to the discovery of cis-regulatory elements involved in plant gravitropic signal transduction.
    X. Liang, K. Shen, J. Lichtenberg, S.E. Wyatt, and L.R. Welch.
    International Journal of Computational Bioscience 1:33-54. 2010.

  9. The word landscape of the non-coding segments of the Arabidopsis thaliana genome.
    Lichtenberg J, Yilmaz A, Welch JD, Kurz K, Liang X, Drews F, Ecker K, Lee SS, Geisler M, Grotewold E, Welch LR.
    BMC Genomics 10:463. 2009 Oct 8.

  10. Word-based characterization of promoters involved in human DNA repair pathways.
    Lichtenberg J, Jacox E, Welch JD, Kurz K, Liang X, Yang MQ, Drews F, Ecker K, Lee SS, Elnitski L, Welch LR.
    BMC Genomics 10(Suppl 1):S18. 2009 Jul 7.

  11. Construction of Genomic Regulatory Encyclopedias: Strategies and Case Studies.
    Jens Lichtenberg, Mohit Alam, Thomas Bitterman, Frank Drews, Klaus Ecker, Laura Elnitski, Susan Evans, Matt Geisler, Erich Grotewold, Dazhang Gu, Edwin Jacox, Kyle Kurz, Stephen S. Lee, Xiaoyu Liang, Pooja M. Majmudar, Paul Morris, Chase Nelson, Eric Stockinger, Joshua D. Welch, Sarah Wyatt, Alper Yilmaz, and Lonnie R. Welch.
    In Proceedings of the 2009 Ohio Collaborative Conference on Bioinformatics (OCCBIO '09). IEEE Computer Society, Washington, DC, USA, 65-70. 2009.

  12. The SiteSeeker motif discovery tool.
    Ecker K, Lichtenberg J, Welch L.
    Silico Biol Volume 9, Number 1-2, 11-22. 2009.

  13. Discovery of regulatory elements in Oomycete orthologs.
    Jens Lichtenberg, Paul Morris, Klaus Ecker, and Lonnie Welch.
    The 2008 International Conference on Bioinformatics and Computational Biology, Las Vegas. 2008 Jul.

  14. Application of bioinformatics and scalable computing to perform proteomic analysis of stomach tissue from diabetic mice.
    Edward O. List, Darlene E. Berryman, Amanda J. Palmer, Elahu Gosney, Shigeru Okada, Bruce Kelder, Jens Lichtenberg, Lonnie R. Welch and John J. Kopchick.
    Journal of Scalable Computing: Practice and Experience 8(2):173-183. 2007 Jun.

Contact Information

354 Stocker Center
School of Electrical Engineering and Computer Science
Ohio University
Athens, OH 45701-2979
740-593-1575 (fax: -0007)
E-mail: welch@ohio.edu

Center for Intelligent, Distributed and Dependable Systems
Russ College of Engineering and Technology
Ohio University
304 Stocker Center
Athens, OH 45701-2979
Tel: (740) 593-1568 | Fax: (740) 593-0007
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