Judith Klein, Professor in the School of Molecular Sciences and College of Health Solutions, obtained her PhD with late Nobel Laureate Har Gobind Khorana at Massachusetts Institute of Technology on conformational changes and folding in the G protein coupled receptor, rhodopsin. She holds dual undergraduate degrees in Biology and Chemistry from the University of Cologne, Germany.
Professor Klein’s research combines computational and experimental studies of protein structure, dynamics and function with particular emphasis on membrane proteins. She has published over 150 papers and has received a number of awards including the FP7 People Funded Marie Curie International Incoming Fellowship, the Sofya Kovalevskaya Award of the Humboldt Foundation, a Bill and Melinda Gates Foundation Grand Challenges Award, National Science Foundation CAREER Award and the Margaret Oakley Dayhoff Award of the Biophysical Society for her “remarkable work in computational biology embracing the full spectrum of experimental biophysics.”
PhD Massachusetts Institute of Technology
Structural biology of proteins
The >160 peer-reviewed papers I have published are organized in the following areas and one example publication in each area is linked below:
Kumar et al. (2021) Transfer of Knowledge from Model Organisms to Evolutionarily Distant Non-Model Organisms: The Coral Pocillopora damicornis Membrane Signaling Receptome, Biorxiv: https://www.biorxiv.org/content/10.1101/2021.10.18.464760v2.full.pdf
Kumar et al. (2021) Structure-based survey of ligand binding in the human insulin receptor (2020) British Journal of Pharmaoclogy: https://doi.org/10.22541/au.162245427.70273837/v1
Planas-Iglesias, J. et al. (2015) Cardiolipin Interactions with Proteins. Biophys. J.: https://www.sciencedirect.com/science/article/pii/S0006349515007699?via%...
Mitchell et al. (2019) Comparison of the molecular properties of retinitis pigmentosa P23H and N15S amino acid replacements in rhodopsin, Plos ONE: https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0214639
Evans et al. (2021) Similarity of the non-amyloid-β component and C-terminal tail of monomeric and tetrameric alpha-synuclein with 14-3-3 sigma. Computational and Structural BIotechnology Journal: https://www.sciencedirect.com/science/article/pii/S2001037021003962?via%...
Kagan et al. (2010) Carbon nanotubes degraded by neutrophil myeloperoxidase induce less pulmonary inflammation, Nature Nanotechnology: https://www.nature.com/articles/nnano.2010.44
Kshirsagar et al. (2021) Protein sequence models for prediction and comparative analysis of the SARS-CoV-2 —human interactome. Pacific Symposirum on Biocomputing: https://www.worldscientific.com/doi/abs/10.1142/9789811232701_0015
Qi et al. (2009) Systematic prediction of human membrane receptor interactions. Proteomics: https://analyticalsciencejournals.onlinelibrary.wiley.com/doi/10.1002/pm...
De Las Rivas et al. (1995) pH sensitivity of the redox state of cytochrome b559 may regulate its function as a protectant against donor and acceptor side photoinhibition. Photosynthesis Research: https://link.springer.com/article/10.1007%2FBF00020430
Leuba et al. (2014) Early integration of the individual student in academic activities: a novel classroom concept for graduate education in molecular biophysics and structural biology. BMC Biophysics: https://bmcbiophys.biomedcentral.com/articles/10.1186/2046-1682-7-6
Studienstiftung des deutschen Volkes (German National Student Foundation) – awarded to the top 1% of the entire German student population
Deutscher Akad. Austauschdienst (DAAD) / German National Exchange Service – supports international student exchange
Howard Hughes Predoctoral Fellowship – supported my PhD studies
Teaching Award, Department of Chemistry, MIT – awarded for my contributions to the Biochemistry undergraduate class
Gordon Research Conference Young Investigator Award – awarded for my work on conformational changes in rhodopsin upon light-activation
Merck Award, Merck Frosst Center for Therapeutic Research – awarded for my work on conformational changes in rhodopsin
Sofya Kovalevskaya Prize, Alexander von Humboldt-Foundation, Germany – awarded for research on membrane receptors
Senior Vice Chancellor Lecture Series
Publication "Long-range interactions within a nonnative protein" found by ISI to be one of most cited recent papers in fields of Biology and Biochemistry.
Publication “Towards a biomedical problem solving environment” selected from 450 published papers of the International Conference on Computational Science for a special issue in Future Generation Computer Systems.
NSF CAREER Award “Evolution of Signaling Mechanisms in Membrane Receptors” for integration of teaching and research
Margaret Oakley Dayhoff Award of the Biophysical Society – for the “most promising young woman in biophysics” awarded for my “remarkable work in computational biology embracing the full spectrum of experimental biophysics”.
Award from the Women Chemists Committee of the Northeastern New York Section of the American Chemical Society for “contributions to encouraging women in chemistry”
Bill and Melinda Gates Foundation Award in the Grand Challenges Explorations Initiative. My proposal was entitled: “Identification of New Drug Targets by Linking HIV Function to Protein Interaction Pathways”.
Chancellor Distinguished Research Award – University of Pittsburgh. Considered the highest recognition in research award the University of Pittsburgh bestows.
Marie Curie Incoming International Fellowship (IIF) – University of Warwick. Awarded to top-class researchers from third countries to work and undertake research in Europe to develop mutually-beneficial research co-operation.
Hacking Eating Tracking – Project Insulin was awarded 4th prize in Hackathon Competition at Harvard University, Cambridge, MA, USA.
Connector Award – College of Applied Science and Engineering, Colorado School of Mines. Awarded for bringing together more than 40 faculty in the Integrative Program of Quantitative Biosciences and Engineering
Thomas R. Nickoloff Entrepreneurship and Innovation Faculty Award – Colorado School of Mines, for entrepreneurship and innovation in the classroom
Academic Management Institute fellowship, participation in events for women in higher education in Colorado
2011 – present Editorial Board, BMC Biophysics
2021 – present Editorial Board, Nutrients
Protein Society, Biophysical Society, International Society for Computational Biology
Theses completed under my supervision
December 12, 2004 Venkatesh Jitender, Master’s in Bioinformatics Concentration of the Center for Biomedical Informatics, University of Pittsburgh
May 17, 2005 Jiangbo Miao, Master’s in Language Technologies, Language Technologies Institute, School of Computer Science, Carnegie Mellon University
Dec. 15, 2006 Ivan Budyak, Ph.D. in Physics, Moscow Institute of Technology, Russia
May 10, 2007 Madhavi Ganapathiraju, Ph.D. in Language Technologies, Language Technologies Institute, School of Computer Science, Carnegie Mellon University
April 2008 Hussein Baradia, Master’s in Bioengineering, University of Pittsburgh
May 14, 2008 Yanjun Qi, Ph.D. in Language Technologies, Language Technologies Institute, School of Computer Science, Carnegie Mellon University
May 15, 2009 Naveena Yanamala, Ph.D. in Integrative Molecular Biology, University of Pittsburgh
Jan. 8, 2010 Irtisha Singh, Master’s in Computational Biology, Carnegie Mellon University
Dec. 2010 Arpana Dutta, Ph.D. in Integrative Molecular Biology, University of Pittsburgh
April 2011 Kalyan Tirupula, Ph.D. in Molecular Biophysics and Structural Biology, University of Pittsburgh
July 12, 2011 Oznur Tastan, Ph.D. in Language Technologies, Language Technologies Institute, School of Computer Science, Carnegie Mellon University
July 5, 2012 Fernanda Balem, Ph.D. in Biologia Celular e Tecidual do Instituto de Ciências Biomédicas Universidade de São Paulo, Brazil.
July 27, 2015 Meghana Kshirshagar, Ph.D. in Language Technologies, Language Technologies Institute, School of Computer Science, Carnegie Mellon University
Feb. 17, 2016 Dariush Mohammadyani, Ph.D. in Bioengineering, University of Pittsburgh
May 2018 James Mitchell, Ph.D., University of Warwick Medical School
May 2019 Shilpa Tejpal, PhD., University of Warwick Medical School
May 2021 Whitney Vizgaudis, MS Quantitative Biosciences and Engineering, Colorado School of Mines
May 2021 Sarah Evans, MS Quantitative Biosciences and Engineering, Colorado School of Mines
August 2021 Nathan Brenner, MS Quantitative Biosciences and Engineering, Colorado School of Mines
A. Primary Appointments
August 2021 – present School of Molecular Sciences & Professor College of Health Solutions Arizona State University
August 2017 – August 2021 Department of Chemistry Associate Professor Colorado School of Mines, USA
March 2013 – August 2017 Warwick Medical School Professor & Institute for Digital Healthcare University of Warwick, UK
Jan. 2006 – Feb 2013 Department of Structural Biology Assistant, since 2009 School of Medicine Associate Professor with University of Pittsburgh, USA Tenure
March 2002 – Dec. 2005 Department of Pharmacology Assistant Professor University of Pittsburgh, USA
December 2001 – Feb. 2002 Language Technologies Institute Research Scientist School of Computer Science Carnegie Mellon University , USA
B. Adjunct Appointments
October 2017 – August 2021 Mines@Catalyst Director Initiative for AI in Bio and Health Catalyst Health Tech Innovation Center
August 2015 – present Tandon School of Engineering Online Professor New York University, USA
July 2002 – Feb 2013 Department of Computational and Adjunct Professor Systems Biology University of Pittsburgh
July 2006 – Feb 2013 Department of Bioengineering Adjunct Professor University of Pittsburgh
Sept. 2008 – May 2009 School of Biological Sciences Professor Royal Holloway Head of Center University of London, UK for Biomedical Sciences
May 2003 – Sept. 2006 Center for Biomedical Informatics Core-Graduate Faculty University of Pittsburgh
July 2002 – August 2013 Institute for Structural Biology Research Scientist Research Institute Jülich, Germany
numerous committees, review panels, ad hoc reviews, outreach activities, women in science
CEO of Sarkar-Klein-Labs LLC
Co-Owner of Neosensations LLC
Owner of Sense2safeguard (S2S), LLC