|
The goal of the Student Seminar Series is to provide a forum where students can learn about research that is being tackled in a variety of labs across campus and a place where they can present some of their own work in an informal setting outside of regular research groups. Open to all students and post-docs associated with the BioMaPS Institute and the Graduate Program in Computational Biology and Molecular Biophysics, as well as related programs; all others, including faculty, by special invitation only.
Fall 2009 SeminarsDecember 3, 2009 "TBA" Erhan Bilal - Gyan Bhanot's group 12:30 - 1:30 PM; Hill Center, Rm 260 Lunch provided 12:00 noon November 19, 2009 "Chemical Sensing: Biophysical Modeling and Bayesian Analysis Provide Insights into Combinatorial Strategy of Olfaction" Julie Tsitron - Alexandre Morozov's group 12:30 - 1:30 PM; Hill Center, Rm 260 Lunch provided 12:00 noon November 5, 2009 "Stability, Fitness, and Drug Resistance in HIV-1 Protease" Omar Haq - Ronald Levy's group 12:30 - 1:30 PM; Hill Center, Rm 260 Lunch provided 12:00 noon October 22, 2009 "Decoding Nucleosome Positions with Biophysical Methods" George Locke - Alexandre Morozov's Group 12:30 - 1:30 PM; Hill Center, Rm 260 Lunch provided 12:00 noon October 8, 2009 "Evolution of Sequencing Technologies" Ariella Sasson - Anirvan Sengupta's Group 12:30 - 1:30 PM; Hill Center, Rm 260 Lunch provided 12:00 noon September 24, 2009 "A Computational Approach to Studying Ductal Carcinoma in Situ (DCIS) Morphology and Progression" Kerri-Ann Norton - Troy Shinbrot's Group 12:30 - 1:30 PM; Hill Center, Rm 260 Lunch provided 12:00 noon September 10, 2009 "Consensus Clustering in CUDA: Harnessing the power of the GPU to mine tumour microarray data" Michael Seiler - Gyan Bhanot's Group 12:30 - 1:30 PM; Hill Center, Rm 260 Lunch provided 12:00 noon
Spring 2009 Seminars
April 24, 2009 (Special) "Seeing The "Invisible" by NMR Spectroscopy" - Introduction to Lewis Kay's research Kuen-Phon Wu & Chitra Narayanan - Jean Baum and Ronald Levy's Group 12:45 - 1:45 PM; Hill Center, Rm 260 Lunch provided 12:15 PM April 16, 2009 "Sugar Folding: New Algorithm Development and Computer Simulations of Complex Carbohydrates in Solution" Junchao Xia - David Case's group 12:45 - 1:45 PM; Hill Center, Rm 260 Lunch provided 12:15 PM "P O S T P O N E D* April 9, 2009 "Seeing the "Invisible" Conformations of Proteins: An Adaptively Biased Dynamics Study of Triosephosphate Isomerase" Sishi Tang - David Case's group 12:45 - 1:45 PM; Hill Center, Rm 260 Lunch provided 12:15 PM *P O S T P O N E D* March 26, 2009 "Bridging Biophysics and Population Genetics to Build a Model of Protein Evolution" Julia Tsitron - Alexandre Morozov's group 1:00 - 3:00 PM; Hill Center, Rm 260 Lunch provided 12:30 PM March 5, 2009 "In Silico Study of Allostery and Large-Scale Conformational Changes in Integrins" Thomas Gaillard - David Case group 1:00 - 3:00 PM; Hill Center, Rm 260 Lunch provided 12:30 PM February 19, 2009 "Introduction to the Resource Center for Graduate Student External Support" Teresa M. Delcorso - Assistant Dean 1:00 - 3:00 PM; Hill Center, Rm 260 Lunch provided 12:30 PM February 12, 2009 "Biophysical Models of Nucleosome Positioning and Protein Energetics" Allan Haldane - Alexandre Morozov's group 1:00 - 2:00 PM; Hill Center, Rm 260 Lunch provided 12:30 PM
Fall 2008 SeminarsDecember 12, 2008 "Using Markov Chains to Model Transcription Initiation" Eliane Traldi - Konstantin Mischaikow's group 1:00 - 2:00 PM; Hill Center, Rm 260 Lunch provided 12:30 PM December 4, 2008 "An investigation of the lac operon" Kate Patterson - Tomas Gedeon, Montana State University 1:00 - 2:00 PM; Hill Center, Rm 260 Lunch provided 12:30 PM November 20, 2008 "Minor groove electrostatics provides a molecular origin for protein-DNA specificity" Remo Rohs - HHMI and Columbia University 1:00 - 2:00 PM; Hill Center, Rm 260 Lunch provided 12:30 PM November 6, 2008 "Three-dimensional classification of HIV-1 reverse transcriptase and HIV-1 protease structures reveals a limited number of eigenstructures" Tom Eck - Eddy Arnold's group 1:00 - 2:00 PM; Hill Center, Rm 260 Lunch provided 12:30 PM October 23, 2008 "Finding the sequence dependent deformability of RNA helical regions including non-canonical Watson-Crick base-pairs" Mauricio Esguerra - Wilma Olson's group 1:00 - 2:00 PM; Hill Center, Rm 260 Lunch provided 12:30 PM October 2, 2008 "Stabilizing the trp-cage using a hetero-chiral helix cap" Srinivas Annavarapu - Vikas Nanda's lab, UMDNJ 1:00 - 2:00 PM; Hill Center, Rm 260 Lunch provided 12:30 PM September 18, 2008 "Research in biophysics: why do it anyway?" Alexandre Morozov - Assistant Professor 12:00 - 1:00 PM; Hill Center, Rm 260 Lunch provided 11:30 PM
Spring 2008 SeminarsApril 29, 2008 "Host Gene Mimicry in Influenza and Other ssRNA Viruses" Benjamin Greenbaum (Dr. Gyan Bhanot's group) 12:30 PM; Hill Center, Rm 260 Lunch provided 12 Noon. April 15, 2008 "Multiscale Modeling and Simulation of the 30-nm Chromatin Fiber" Guohui Zheng (Dr. Wilma Olson's group) 12:30 PM; Hill Center, Rm 260 Lunch provided 12 Noon. April 1, 2008 "Computational Design of a Transmembrane GFP" Daniel Hsieh (Dr. Vikas Nanda's group) 12:30 PM; Hill Center, Rm 260 Lunch provided 12 Noon. March 25, 2008 "Positive and conditional selection pressure of HIV RT and Protease mutations" Omar Haq (Dr. Ronald Levy's group) 12:30 PM; Hill Center, Rm 260 Lunch provided 12 Noon. March 11, 2008 "Simulating Replica Exchange Simulations of Protein Folding Using a Kinetic Network Model" Weihua Zheng (Dr. Ronald Levy's group) 12:30 PM; Hill Center, Rm 260 Lunch provided 12 Noon. February 25, 2008 "Biophysical studies on interruptions in the (GLY-X-Y)n repeat in the triple helix of non-fibrillar collagens" Geetha Thiagarajan (UMDNJ) 12:30 PM; Hill Center, Rm 260 Lunch provided 12 Noon.
Fall 2007 Seminars October 22, 2007 "A qualitative analysis of the Shea-Ackers model" Eliane Traldi (BioMaPS) 12:30 PM; Hill Center, Rm 260 Lunch provided 12 Noon. November 15, 2007 "Reverse-engineering of biochemical networks: an introductory survey" Paola Vera-Licona (BioMaPS) 11:45 AM; Hill Center, Rm 260 Brunch provided 11:15 AM. November 26, 2007 "Backbone dynamics of natively unfolded human and mouse alpha-synucleins: implications for protein aggregation" Kuen-Phon Wu (Jean Baum's lab, Department of Chemistry & Chemical Biology) 12:30 PM; Hill Center, Rm 260 Lunch provided 12 Noon.
Spring 2007 SeminarsFebruary 6, 2007 "The effects of structural DNA-binding proteins on in vivo DNA looping and supercoiling" Luke Czapla (Chemistry & Chemical Biology) 12:30 PM; Hill Center, Rm 260 Brunch provided 12 Noon. March 8, 2007 "Genetic Analysis of Dietary Restriction in C. elegans" Brian Onken (Monica Driscoll's Lab, Department of Molecular Biology and Biochemistry) 12:30 PM; Hill Center, Rm 260 Brunch provided 12 Noon. March 29, 2007 "Knowledge-based Study of DNA in Nucleosome Positioning" Guohui Zheng (Computational Biology & Molecular Biophysics) 12:30 PM; Hill Center, Rm 260 Brunch provided 12 Noon. May 3, 2007 "The search for new potential inhibitors of HIV-1 Reverse Transcriptase: A novel drug discovery protocol utilizing Replica Exchange Molecular Dynamics" Kristina Paris (Chemistry and Chemical Biology) 12:30 PM; Hill Center, Rm 260 Brunch provided 12 Noon. May 24, 2007 "Transcription Regulation and Viral DNA Packaging During Development of T7 Family Phages" Dhruti Savalia (Biochemistry & Molecular Biology, UMDNJ) 12:30 PM; Hill Center, Rm 260 Brunch provided 12 Noon.
Fall 2006 Seminars November 9, 2006 "Searching for functional transcription factor binding sites" Todd Riley (Computational Biology & Molecular Biophysics) 11:30 AM; Hill Center, Rm 260 Brunch provided. November 21, 2006 "Proteomic Investigation of Mannose 6-phosphate Receptor Function" Meiqian Qian (Cell & Mol Pharmacology, UMDNJ) 11:30 AM; Hill Center, Rm 260 Brunch provided. November 28, 2006 "Chromatin Silencing: Bistability and Front Propagation" Mohammad Sedighi (Physics) 11:30 AM; Hill Center, Rm 260 Brunch provided. December 5, 2006 "Model Selection: Comparison of RNAP Elongation Models" Vasisht Tadigotla (BioMaPS) 11:30 AM; Hill Center, Rm 260 Brunch provided.
Spring 2006 Seminars All seminars are at 11:30 am in Hill Center Room 260 (with continental brunch provided by BioMaPS). March 3, 2006 "Modeling Structural Heterogeneity in X-ray Crystallographic Refinement" Jennifer Knight (Levy group) 11:30 AM; Hill Center, Rm 260 Brunch provided. April 14, 2006 "Understanding RNA folding using rigid-body parameters" Mauricio Esguerra 11:30 AM; Hill Center, Rm 260 Brunch provided. April 21, 2006 "Profile Hidden Markov Models and Transcription Factor Binding Sites"
Todd Riley 11:30 AM; Hill Center, Rm 260 Brunch provided.
April 28, 2006
"Sin Mutations in Histone H3 and H4 Affect the Conformation and Interactions of DNA with Histone H2A and H2B" Fei Xu 11:30 AM; Hill Center, Rm 260 Brunch provided.
Fall 2005 Seminars
Nov 17, 2005 "Chromatin Silencing: Bistability and Boundary Formation" Mohammad Sedighi (Sengupta group) Brunch provided. Dec 1, 2005 "Themodynamics and Kinetic models of RNA transcription" Vasisht Tadigotla (Ruckenstein group) Brunch provided. Dec 8, 2005 "Monte Carlo Simulations and Their Application to Models of DNA Looping and DNA-Protein Interactions" Luke Czapla (Olson group) Brunch provided. Dec 13, 2005 "Structural transitions in transcription initiation: displacement of the sigma linker region from the RNA polymerase RNA exit channel during promoter escape" Ekaterine Kortkhonjia (Ebright lab) Brunch provided. moved to Wright A-202*
Spring 2005 SeminarsFebruary 21, 2005 "Modeling transcription complexes using Fluorescence Resonance Energy Transfer measurements"
Ekaterine Kortkhonjia (Ebright lab) and Jennifer Knight (Levy lab)
12 noon-1pm: Hill Center, Rm 260
Brunch provided. March 7, 2005
"Homology Model Design for the mammalian Target of Rapamycin (mTOR)"
Anne Tobak (Welsh lab, UMDNJ)
12 noon-1pm: Doolittle Annex Training Room
Brunch provided. March 28, 2005
"Mathematical Modeling of the R1 Plasmid CNC Gene Network"
Todd Riley (BioMaPS)
12 noon-1pm: Hill Center, Rm 260
Brunch provided. April 11, 2005
"A Simple Model of Transcript Elongation"
Daibhid O'Maoileidigh(Ruckenstein Group)
12 noon-1pm: CABM Room 341
Brunch provided. April 25, 2005 Ruadhan O'Flanagan (Sengupta group)
Detecting Gene Regulation
12 noon-1pm: Waksman Seminar Room 1001
Brunch provided. May 9, 2005 Yulia Volovik (Arnold lab)
"Hydrophobic Drug Aggregation: Drug Bioavailability and Aggregate Structure "
1-2pm : Hill Center Room 260
Brunch provided. June 20, 2005 CANCELLED
German Enciso (Sontag group)
Title: TBA
12-1pm : Hill Center Room 260
Brunch provided. June 27, 2005 David Snyder (Montelione lab) Brunch provided. |
Seminars and Events 
