25th Annual On-site CCB Workshop 2024
July 22 – 24, 2024
CCAM at UConn Health
Is developing new approaches for in vivo measurements and manipulation of molecular events within the cell, and new computational approaches for organizing such data into quantitative models.
CCAM integrates new microscope technologies for making quantitative in vivo live cell measurements with new physical formulations and computational tools that will produce spatially realistic quantitative models of intracellular dynamics.
To investigate the relationships between experimental and computational worlds, we use a tripartite approach described as:
- Measure - develop new tools for measuring spatially resolved dynamic behavior of molecules in cells.
- Model - develop new methods for spatial modeling of biological systems.
- Manipulate - develop new techniques for manipulating the spatial distribution of molecules in living cells.
These three analytical approaches, (measurement, modeling and manipulation) are integrated and interdependent, e.g., models generate predictions that can be validated with new measurements, as well as experimental approaches that manipulate intracellular signals and structures. These approaches allow us to tackle fundamental questions of how the spatial organization of molecules in cell is established and how it is utilized to control cell function. CCAM hosts a confluence of expertise in physics, chemistry, experimental cell biology and software engineering immersed in a biomedical research setting that values interdisciplinary collaborations, and our Training Program in Systems Biology provides a new model for interdisciplinary training in cell biology. CCAM is the home of the Virtual Cell, a computational environment for cell biological modeling developed as a NIH-designated National Resource, and also hosts a variety of projects in biophotonics and live cell microscope imaging methods as well as a state-of-the-art user microscopy facility for nonlinear, confocal, and widefield microscopy.
Inclusivity Statement
CCAM is committed to fostering an inclusive and tolerant research environment. We support students and faculty of all races, religions, ethnicities, differing physical abilities, sexual orientations, and gender identities.
UConn maintains a number of resources to promote inclusivity and to report complaints:
Office of Institutional Equity
Ombuds Office
Dean of Students Office Bias Reporting
Office for Diversity and Inclusion
School of Medicine Office of Multicultural and Community Affairs
Upcoming Events
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Mar
22
CAM Presentation - Rudradeep Mukherjee 12:00pm
CAM Presentation - Rudradeep Mukherjee
Friday, March 22nd, 2024
12:00 PM - 01:00 PM
Demo Room, R1401
CAM Presentation
Speaker: Rudradeep Mukherjee
Title: TBD
Meeting Link: https://uconnhealth.webex.com/meet/pmendes
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Mar
29
CAM Presentation - Cancelled 12:00pm
CAM Presentation - Cancelled
Friday, March 29th, 2024
12:00 PM - 01:00 PM
Demo Room, R1401
CAM PresentationCancelled - Good Friday -
Apr
5
CAM Presentation - Siyu Sun 12:00pm
CAM Presentation - Siyu Sun
Friday, April 5th, 2024
12:00 PM - 01:00 PM
Demo Room, R1401
CAM PresentationSpeaker: Siyu SunTitle: TBDMeeting Link: https://uconnhealth.webex.com/meet/pmendes -
Apr
11
CCAM Seminar Series - Dr. Robin Dowell 4:00pm
CCAM Seminar Series - Dr. Robin Dowell
Thursday, April 11th, 2024
04:00 PM
CGSB, 400 Farmington Ave
CCAM Seminar Series
Guest Speaker: Dr. Robin Dowell, Professor, Molecular Cellular and Developmental BiologyTitle: “Finding Treasure in Nascent Transcription”
Abstract: Transcription factors orchestrate transcription and play a critical role in cellular maintenance, identity and response to external stimuli. While ChIP assays have measured DNA localization, they fall short of identifying when and where transcription factors are actively regulating transcription.
Run-on nascent transcription assays, on the other hand, measure the immediate output of all cellular polymerase. Using biologically informed models of RNA polymerase II, we can identify genome wide thousands of sites of transcription initiation, from which short, bidirectional, unstable transcripts are produced. These sites of bidirectional transcription mark enhancers and promoters. Furthermore, production of the bidirectional transcripts serves as an excellent marker of transcription factor activity. From these markers we can identify which TFs respond to a perturbation, identify the set of TFs actively participating in regulation within a cell type, and tie some disease associated variation to its regulatory function.
Contact Information:
More -
Apr
12
CAM Presentation - Eran Agmon 12:00pm
CAM Presentation - Eran Agmon
Friday, April 12th, 2024
12:00 PM - 01:00 PM
Demo Room, R1401
CAM PresentationSpeaker: Eran AgmonTitle: TBDMeeting Link: https://uconnhealth.webex.com/meet/pmendes
News
- 25th Annual Comp Cell Bio workshopVCell, COPASI and SpringSalad were taught and used for projects at the 25th Annual Computational Cell Biology (CCB) workshop that took place online February 26-28th. The invited talks were given by Yulia Timofeeva (University of Warwick), James P Sluka (Indiana University) and Kevin Janes (University of Virginia). Sixteen participants were selected to work with VCell and COPASI […]
- Dr. Agmon published Cell Reports on restructuring of tumor tissueCongratulations to Dr. Agmon and his collaborators from Stanford for publishing an article in Cell Reports on T cell-mediated curation and restructuring of tumor tissue coordinates an effective immune response. https://www.sciencedirect.com/science/article/pii/S2211124723015061
- Drs. Blinov and Johnson organize a subgroup at ASCB2023Drs. Michael Blinov and Margaret Johnson (John Hopkins University) organized a subgroup on Biophysical Modeling of the Cell at the American Society of Cell Biology (ASCB) annual meeting CellBio2023. Among the speakers are Elizabeth Read (UCI), Jason Haugh (NCSU) and Graham Johnson (Allen Institute).
- CCAM alumni collaborate in teachingCCAM alumni continue to collaborate after graduation. Our recent graduate Ani Chattaraj (PostDoc at Harvard) teaches a Computational Modeling in Biology module for a Molecular Biology Techniques course offered at Saint Elizabeth University by our alumni Sofya Borinskaya (Assistant Professor at SEU).
- Dr. Vera-Licona gave the invited talk at RedMexBiomateCongratulations to Dr. Vera-Licona for the invited talk “Network-Based Cell Reprogramming: Tools and Applications” at the inaugural event for the Mexican Biology and Mathematics Network (RedMexBiomate), November 7-10 in Cuernavaca, Mexico.