STRUCTURAL & COMPUTATIONAL DISCUSSION GROUP
Time and Place Traditionally, Foothills, 4th Monday (most months) 3:30 -5:00. Talk starts at 4pm. Currently on Zoom 3:45-5:00.
Course Instructor Professor Salsbury
Contact Info salsbufr@wfu.edu, Olin 301A
OVERVIEW
This is a discussion group in which faculty, postdocs, and graduate students in the SCB program present, listen to and discuss current research at Wake Forest in structural & computational biophysics and biology.
We have a mailing list, email Dr. Salsbury to be added.
Current Schedule
- October 26 2020 Patricia Dos Santos, (Chemistry) “2-thiouridine tRNA modification responds to sulfur availability in Bacillus subtilis’
- November 23 2020 Minghan Chen, (Computer Science) “Discovering the Dynamic Reaction-Diffusion Patterns of AT[N] Biomarkers in Alzheimer’s Disease”
Previous Years
2019-2020
- September 23 2019 No Discussion group due to: Katie Meyer from Duke University, (Biochemistry) in Winston Hall
- * not at Foothills*
- October 28 2019 Stephanie Batalis, (Biochemistry)
- Jan 27 2020 Ashley Edwards, (Chemistry)
- Feb 24 2020 Wayne Hemphill, (SCB T32 recipient, Biochemistry)
March 23 2020 Minghan Chen, (New Faculty, Computer Science)- Moved to Fall 2020 due to pandemic
April 27 2020 Natalia Khuri, (New Faculty, Computer Science)- Canceled due to pandemic
2018-2019
- September 24 2018 Wayne Hemphill (SCB T32 recipient, Biochemistry) “TREX1 Inhibition as a Novel Cancer Immunotherapy “
- October 22 2018 Ferdiemar Guinto (SCB T32 recipient, Chemistry) “TBA”
- Feb 25 2019 James Pease, (Newer Faculty, Biology)
- March 25 2019 Derek Parsonage, (Biochemistry)
- April 22 2019 Troy Stitch, (New Faculty, Chemistry)
2017-2018
- September 25 2017 Ryan Melvin (SCB T32 recipient, Physics, and Mathematics & Statistics) “Community-relative distance with applications to biophysics”
- October 23 2017 Stephen Rego (Biochemistry) “TREX1 in autophagy-dependent degradation of intrinsic cytosolic DNA”
- Jan 29 2018 David Ornelles (Microbiology and Immunology) “A quantitative view of translation”
- March 26 2018 Jiajie Xaio (Physics and Computer Science) “Kmer-based sequence classification and de novo discriminating motif discovery”
- June 5 2018 George Holzwarth (Physics) “Bayesian analysis of single-particle tracks to study motion in live cells.” co-sponsored by the Department of Physics and the SCB Training Grant.
2016-17
- September 26 2016 Leslie Poole (Biochemistry) “Catalysis by peroxiredoxins at high temporal and structural resolution”
- October 31 2016 Emil Nilsson (SCB T32 recipient, Chemistry, SCB Certificate Student) “Translational fidelity and increased bacterial fitness”
- Feb 27 2017 Martin Guthold (Physics) “High-throughput binding kinetics & drug discovery on a next-generation sequencing chip” and Roy Hantgan (Biochemistry) “Biophysics Benchmarks Binding!”
- March 27 2017 Ryan Davis (SCB T32 recipient, Biochemistry) “TBA”
2015-16
- September 28 2015 Sam Cho (Physics and CS) and Uli Bierbach (Chemistry) “Computational and Experimental Characterization of rDNA and rRNA G-Quadruplexes and Their Interactions with Small Molecules.”
- October 26 2015 Adam Hall (Biomedical Engineering) “DNA Base Modification Detection and Sequence Selection Using Solid-State Nanopores”
- Feb 22 2016 Marin Guthold (Physics) “Fascinating Fibrin Fibers”
- March 28 2016 Ryan Godwin (SCB T32 recipient, Physics, SCB Certificate Student) “Finding NEMO: Molecular Dynamics Simulations of Zinc Fingers”
- April 25 2016 Chris Mauney (SCB T32 recipient, Biochemistry, SCB Certificate Student) “The dNTP triphosphohydrolase SAMHD1 is a redox-regulated enzyme”
- June 13 2016 Jeremiah Keyes (Biochemistry) “Regulation of Erk signal transduction by signal-induced cysteine oxidation”
2014-15
- Doug Lyles (Biochemistry) “Migration of Cytoplasmic Particle and Organelles in Virus-Infected Cells”
- Jade Mims (SCB T32 recipient, Molecular Medicine) “Integrated “omics” approach to discover therapies for radiation resistant head and neck cancer”
- Mark Lively (Biochemistry) “Science Funding and Shaping Science Policy”
- Rebecca Alexander (Chemistry) “Structural Integrity and conformational flexibility of transfer RNA”
- Adam Hall (BME) “Detecting and Quantifying DNA Structural and Chemical Modifications at the Single Molecule Level”
- William Turkett (CS) “Algorithms to Detect sequence motifs and to predict post-translational modification sites”
2013-14
- Jason Fye (Biochemistry, SCB Certificate graduate) “Aberrant dsDNA metabolism in TREX1-associated immune dysfunction”
- Kim Nelson (Biochemistry) “Identifying structural features influencing the sensitivity of Peroxiredoxins to inactivation using active site profiling and clustering analysis”
- Janelle Leuthauser (SCB T32 recipient, Molecular Genetics) “Protein similarity networks based on sequence, structure, and active site environment”
- Jacque Fetrow (Physics & CS) “What do all those proteins do? An approach to functionally relevant clustering of the protein universe”
- Thomas Poole (SCB T32 recipient, Chemistry) “Synthesis and use of more reactive sulfenic acid probes”
- Amanda Smelser (SCB T32 recipient, Biochemistry, SCB Certificate Student) “Viscoelastic properties of normal, tumorigenic and metastatic breast cells”
2012-13
- Tom Hollis (Biochemistry) “DNA Recognition and Transcriptional Regulation of Bacterial Virulence Genes” “
- Andrea Belanger (SCB T32 recipient, Physics) “Osmotic Deformability of Red Blood Cells during Storage and Transfusion”
- Cristina Furdui (Molecular Medicine) “Redox Regulation of Akt2 by ROS-inducing Signaling Cues”
- Uli Bierbach (Chemistry) “Biochemical and Biophysical Studies of DNA-Targeted Platinum-Intercalator Agents”
- Jim Norris (Math) and David John (CS) “Hierarchical Bayesian system network modeling of multiple related replicates”
2011-12
- Jed Macosko (Physics) “The Biobook Project: how to reinvent e-textbooks before it’s too late”
- Todd Lowther (Biochemistry) “Targeting Hydroxyproline Metabolism for Primary Hyperoxaluria and Kidney Stone Formation”
- Laura Dillon (SCB T32 recipient, Biochemistry) “DNA Secondary Structures Invovled in Fragile Site Breakage from the Study of Human Chromosome 10”
- Edward Allen (Math) “Fuzzy logic modeling of time series data”
2010-11
- Sam Cho (Physics & CS) “RNA folding and Ribosome assembly”
- Leslie Poole (Biochemistry) “Where do the cysteine-dependent peroxidases fit into the world of redox signaling? “
- Paul Pauca (CS) “Integrated and Computational Imaging”
- Lindsay Comstock (Chemistry) “Probing Biological Modifications Through Cofactor Mimicry “
- Larry Daniel (Biochemistry) “Redox Control of Cell Growth and Death”
2009-10
- Rebecca Alexander (Chemistry) “Biochemical and computational analysis of protein dynamics”
- Yuh-hwa Wang (Biochemistry) “Human chromosomal fragile sites and cancer”
- Keith Bonin (Physics) “Optogenetics”
- John Wilkinson (Biochemistry) “The multiple personalities of apoptosis inducing factor: from cell killer to cancer promoter”
- Timo Thonhauser (Physics) “A DFT approach for Modeling DNA Intercalation”
2008-09
- Patricia Dos Santos (Chemistry) “Identifying bacterial pathways for Fe-S cluster assembly”
- Jim Norris (Math) “Probability-based continuous network modeling of short time course data”
- Tom Hollis & Fred Perrino (Biochemistry) “Structure and function of the mammalian RNase H2 complex”
- Peter Antinozzi (Biochemistry) “”Functional mapping of disease-susceptibility loci: RNAi screens and high-content imaging”
- Martin Guthold (Physics) & Roy Hantgan (Biochemistry) “Measuring the dynamic strength of integrin:fibrin adhesive forces”
2007-08
- Jim Curran (Biology) “Ribosomal Proctology: Probing the Exit Site”
- Roy Hantgan (Biochemistry) “Macromolecular Interactions Core Laboratory’s Tricks of the Trade”
- Cristina Furdui (Molecular Medicine) “A Kinetics Approach to Oncoproteomics: the Missing Link to Personalized Medicine”
- Freddie Salsbury (Physics) “Protein Electrostatics, Dynamics, Structure and Function (or Stuff Fred Likes)”
- William Turkett (CS) “Probabilistic Approaches to Clustering and Motif Analysis (PACMAN)”
2006-07
- Dany Kim-Shaprio (Physics) “Nitric Oxide Scavenging in Health, Disease and Therapeutic”
- David John (CS) “Modeling signaling pathways in chondrocytes”
- Doug Lyles (Biochemistry) “Structure of viral nucleoprotein-matrix complexes”
- Martin Guthold (Physics) “The extreme viscoelastic properties of fibrin fibers”
- Jacque Fetrow (Physics & Computer Science) “Structure and dynamics of peroxiredoxin functional sites”
- Linda McPhail (Biochemistry) “NADPH Oxidase: redox and regulation”
2005-06 (This is the year we moved to Foothills; were we have been ever since.)
- Jason Grayson (Microbiology & Immunology) “T Cell Death During Viral Infection”
- William Turkett (CS) “Reconstructing Biological Networks through Bayesian Network Learning”
- Gloria Muday (Biology) “Understanding hormone response using genome-wide transcription analysis in Arabidopsis thaliana”
- Jed Macosko (Physics) “Want to Look Inside an Axon? Call MEDIC! Motion Enhanced Differential Interference Constrast Microscopy”
- Larry Daniel (Biochemistry)
2004-05 (We were at Lucky 32.)
- Leslie Poole (Biochemistry) “Profiling of redox-sensitive signaling proteins via cysteine sulfenic acid detection: combing computational and chemical analysis tools for biological discovery”
- Ed Allen (Math) & David John (CS) “Dependency modeling of biological signaling networks using computational algebraic algorithms, Monte Carlo methods and game theoretic techniques”
- Rebecca Alexander (Chemistry) “Dissecting inter-domain communication in methionyl-tRNA synthetase”
- Roy Hantgan (Biochemistry) “Perils of Prediction”
- David Horita (Biochemistry) “TBA”
- Freddie Salsbury (Physics) “Computational Studies of Mismatch Repair Proteins”
2003-04 ( The first two were at Ryan’s in the Fall. We then moved to Lucky 32 in the Spring.)
- Fred Perrino (Biochemistry) ‘The metazoan 3′->5’ deoxyribonucleases encoded by the TREX genes”
- Paul Hemler (CS) “Enhancement of Blood Vessels in Computed Tomography Images of the Liver”
- Daniel Kim-Shapiro (Physics) “What’s right about nitrite”
- Mary Sorci-Thomas (Pathology) “ApoA-I Structure and Function: Studies of a Lipid Binding Protein and Co-Activator for Cholesterol Esterification”
- Todd Lowther (Biochemistry)”Molecular Basis for repair of oxidized methionine: A fountain of youth?”
- Bernie Brown (Chemistry) “Archael Box C/D sRNP complexes: Recent structural and