Hands-On Workshop on Computational Biophysics: October 12 – 15, 2020

We would like to make you aware of this year’s remote (online) workshop:

Workshop Dates: October 12 – 15, 2020
Application Deadline: September 16, 2020
For more details, or to apply visit:

The Hands-On Workshop on Computational Biophysics is a joint-effort between The NIH Center for Macromolecular Modeling & Bioinformatics at UIUC [www.ks.uiuc.edu] and The National Center for Multiscale Modeling of Biological Systems (MMBioS) [mmbios.org]. Drs. Ivet Bahar (Pitt) and Emad Tajkhorshid (UIUC) will lead the instruction for this interactive 4-day event. The workshop will cover a wide range of physical models and computational approaches for the simulation of biological systems using NAMD, VMD, and ProDy. Space is limited and applications will be accepted until September 16th. This workshop is jointly supported by MMBioS, an NIH Biomedical Technology and Research Resource and the NIH Center for Macromolecular Modeling & Bioinformatics.

The agenda for the workshop will be updated and posted on the meeting website:

Senior Vice Chancellor’s Research Seminar: Maria Chikina

Please mark your calendars and join us on Friday, September 11, 2020 for the University of Pittsburgh’s Senior Vice Chancellor’s Research Seminar Series featuring Dr. Maria Chikina, Assistant Professor in the Department of Computational & Systems Biology.  Dr. Chikina’s seminar is titled “Finding Concise Descriptors of Genomic Data”.  The virtual seminar will take place from 12:00-1:00 pm. Please note that you must “register” for her seminar using the link below in order to receive connection details.

Dr. Chikina’s September 11 SVC lecture will be virtual, and registration is required to receive event information.

Click to register: https://bit.ly/3hDMgIo.

Xing Lab publish in Science Advances: Quantify cell phenotypic transition dynamics

In this work the Xing Lab tackled an outstanding open question on if and how one can extract dynamical information from snapshot data.
They first developed a quantitative framework that integrates standard imaging facilities and state-of-the-art computational analysis approaches to extract high-dimensional dynamical features of single live cell trajectories. The ability of being “quantitative” and “high-dimensional” is critical for addressing the question mentioned above. The framework allows one to use the same mathematical language to quantitatively describe cell phenotypic transition dynamics as one describes particle motions in physics and chemistry. This a conceptual novelty sets up a new framework of studying the biological processes from a physics perspective. They studied the epithelial-to-mesenchymal transition, and identified two parallel paths for the transition process that are concealed from snapshot data due to cell-cell heterogeneity. The work demonstrates the importance of live cell studies, and our developed framework provides such a general quantitative platform.

Wang W, Douglas D, Zhang J, Chen YJ, Cheng YY, Kumari S, Enuameh MS, Dai Y, Wallace CT, Watkins SC, Shu W, Xing J. (2020) Live cell imaging and analysis reveal cell phenotypic transition dynamics inherently missing in snapshot data. Science Advances.

Benos Lab receives funding from NIH-NIAAA

Dr. Benos and his colleagues have received a grant from the National Institute of Alcohol Abuse and Alcoholism (NIAAA) to identify novel biomarkers for and predict outcome of alcoholic hepatitis.

Takis Benos

Gavin Arteel

Michael Merchant

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