The Jernigan Laboratory
Welcome to Jernigan lab website! Our primary focus is on computations on cells, proteins, nucleic acids, and small molecules, and their interactions. Often we work at the interface between sequence and structure and on the relationship between dynamics and mechanism. In this latter case we often use simple models to improve comprehension of mechanisms. We often perform datamining and data analyses.
We are located at Department of Biochemistry, Biophysics, and Molecular Biology at Iowa State University Ames, Iowa. Our research is pushing toward the comprehension of the functions of and mechanisms of larger structures, and the use of large, diverse data to construct models of these.
Jernigan's research background:
- Mining information from protein structures and using it to evaluate predicted structures – Miyazawa-Jernigan potentials, elastic network deformations of structures, protein and ribosome mechanism.
- Knowledgeable about a wide variety of research subjects, from the physical sciences to the biological sciences, from biomedicine to genomics, with a broad view of basic and applied research.
- A recognized authority in computational and structural biology, with broader interests in bioinformatics, genomics, structural biology, protein engineering and sub-cellular biology
- High impact publications – 1 paper ~ 1900 citations, and 49 papers with > 100 citations each
- 20,000+ citations, h-index 67
- Fellow, AAAS
- Fellow, Biophysical Society
- Book “Protein Actions” 2018 PROSE award for best textbook in the biological and life sciences.
Improving Protein Sequence Matching
Understanding Protein Packing
Improved Protein Potentials - especially Entropies
Understanding Protein Mutants - Discriminating Bad from Good
Protein Mechanism from Dynamics
Simplifying and Improving Protein Calculations
Many-Body Correlations from Sequences
Connecting Sequence Correlations to Dynamics
Links to Research Topics
Protein Language Model Performs Remote Homolog Detection
News release about our new Bioenergy Grant
New grant from NIH-HGRI Novel Use of Genome Information to Understand Mutations
Grant from NIH-NIGMS Protein Sequence Matching
Sayane Shome (recent PhD grad) to Stanford Medicine as a postdoc in the lab of Nima Aghaeepour!
Pranav Khade (recent PhD grad) to St. Jude's Children's Research Hospital as a postdoc.
4/29/22 Pranav Khade wins Research Excellence Award (REX).
An interview with Ben Litterer (undergrad researcher in our lab) in an ISU LAS publication.
Kejue Jia and Mesih Kilinc just completed in one day a massive multiple sequence algnment of 100,000 protein sequences! The first of many to come....
presenting keynote lecture at ISMB/ISCB COSI 3DSIG in Madison, WI on July 13
Unprecedented Opportunities for Datamining of Protein Sequences and Structures
Unprecedented Opportunities for Careers in Protein Science