Our team

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Anna Panchenko, Professor, Canada Research Chair Tier 1

Department of Pathology and Molecular Medicine
Department of Biomedical and Molecular Sciences
School of Computing Kingston, ON, Canada

Senior Investigator

Ontario Institute of Cancer Research Toronto, ON, Canada

Anna received her B.S. (1989) and PhD (1993) from the Biophysics Department of Moscow State University in Russia, where she studied protein dynamics by Mossbauer spectroscopy. She came to the USA as an NSF visiting fellow and subsequently worked as a post-doctoral fellow in the School of Chemical Science of the University of Illinois at Urbana- Champaign. While at UIUC, she studied the kinetics of ligand binding to myoglobin and protein folding. In September 1997, Anna joined the National Center for Biotechnology Information, NIH, as an IRTA Research Fellow, later as a Staff Scientist and then as a Lead Scientist. Her team worked on the development of computational algorithms for the analysis of protein sequence and structure, protein-protein interactions, identifying cancer driver events and nucleosome dynamics. In July 2019 she was recruited to the Queen's University School of Medicine where currently she leads her team through uncharted waters in computational biology and biophysics.
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Publications


Peng

Yunhui Peng, Postdoctoral Fellow, NCBI, NIH (co-supervised with Dr David Landsman)

March 2019 -

Yunhui Peng received B.S. from Xi'an Jiaotong University in China and PhD in Computational Biophysics from Clemson University, USA. During his graduate work he applied computational approaches to investigate the effects of disease-associated missense mutations and further rescue the effects by small molecule binding. Currently he is working on combining computational molecular modeling and experimental data to investigate the nucleosome dynamics and its relation to DNA damage and repair.

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Shuxiang

Shuxiang Li, Postdoctoral Fellow

October 2019 -

Shuxiang Li received his B.S. from the Central China Normal University with the double majors in Chemistry and Biology and his Ph.D. in Biochemistry from the University of Iowa, USA. Later, he worked for two years as a postdoctoral fellow at Rutgers University, USA, where he develop computational methods for the analysis and modeling of nucleic acids and their interactions with proteins. Currently he is using high performance computing to develop approaches for studying the effects of epigenetic modifications on the structure, stability and dynamics of nucleosomes.

Google Scholar profile


Shubhangi

Shubhangi Gupta, Postdoctoral Fellow

February 2020 -

Shubhangi Gupta received her MSc in Physics from the University of Mumbai and her PhD from the Department of Chemistry, Indian Institute of Technology Bombay. In her PhD work, she used molecular dynamics simulations on peptide and protein models from Ribonuclease Sa and Human Carbonic Anhydrase II proteins to investigate their folding and energetics.

Publications


tyryshkin

Kathrin Tyryshkin, Biomedical Data Scientist, Adjunct Assistant Professsor (part-time in the lab)

Kathrine received her BA in Computer Science from the York University, Toronto, MSc in Computer Science from Queen's University, Kingston, working in the area of computer assisted surgery and a PhD in Computer Science from Queen's University working on robotic stroke assessment. Dr. Tyryshkin has extensive expertise in different areas of Artificial Intelligence, Machine Learning, Biostatistics and Data Science. She specializes in design of novel and advanced algorithms that facilitate the search for biomarkers and the development of classification models for diagnosis, assessment, and prognosis of a medical condition or disease.

Publications


Sima Afsharnezhad, PhD, Biomedical Data Scientist Volunteer

Publications


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Group Alumni, current affiliations and years spent in the lab

Postdoctoral fellows

  • Alexander Goncearenco, Data Scientist, NHGRI, NIH, USA (2013 - 2019)
  • Seyit Kale, Group Leader, Computational Biophysics lab Izmir Biomedicine and Genome Center, Turkey (2018 - 2019)
  • Dr Alexey Shaytan, Group Leader, Integrative Biology Group, Lomonosov Moscow State University, Russia (2013 - 2017)
  • Dr Minghui Li, Professor, Soochow University, China (2012 - 2016)
  • Dr Hafumi Nishi, Professor, Tohoku Univeristy, Japan (2010 - 2012)
  • Dr Manoj Tyagi, Bioinformatics Scientist Leader, NCI, NIH, USA (2006 = 2010)
  • Dr Kosuke Hashimoto, Research Scientist, RIKEN, Japan (2009 - 2011)

Postbac and visiting graduate students

NIH post-baccalaureate program is a highly competitive program intended for students with B.S. degrees to do research for 1-2 years at NIH. NIH does not have its own graduate school but offers programs for graduate students to visit.

  • Yaroslav Markov, Yale University Graduate Program, USA (August 2018 - June 2019)
  • Anna-Leigh Brown, University College London Graduate Program, UK (October 2017 - December 2018)
  • Azhar Khandekar, UC San Diego Graduate Program, USA (January 2017 - July 2018)
  • Franco Simonetti, Max Planck Institute for Biophysical Chemistry, Germany (Fulbright Fellow, February - August 2015)
  • Eli Draizen, University of Virginia Graduate Program, USA (2015)
  • Margo Petukh, Assistant Professor, Presbyterian College, SC, USA (February - May 2014)

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Sabbatical Visitors:

Summer intern students:

  • Caroline Cunningham
  • Stephanie Rager (Cornell University Medical School, USA)
  • Christiana Chang
  • Michael Brockman
  • Xiao Li