Difference between revisions of "Journal Club"

Revision as of 16:42, 14 August 2015

Schedule (subject to change)

June 30: Reading papers, and citation management

July 7: Journal club - Abhi - Molecular Structure of β-Amyloid Fibrils in Alzheimer’s Disease Brain Tissue

July 14: Preparing figures I: Inkscape and Illustrator

July 21: Journal club - File:ThiovlavinTAndAmyloidStructure.pdf David B

July 28: Preparing figures II: Pymol and Chimera

August 4: JC - Eleanor - File:Watching proteins fold one molecule at a time.pdf

August 11: JC - David O - http://www.ncbi.nlm.nih.gov/pubmed/25730859

August 18: Propagation of error and other stats essentials

August 25: JC - Hannah - A mechanistic model of tau amyloid aggregation based on direct observation of oligomers

Sept 1: JC - Eri

Past Journal Clubs

June 9, 2015

Eri - Simulation-based model selection for dynamical systems in systems and population biology

May 12, 2015

Hannah - journal club The active Hsc70/tau complex can be exploited to enhance tau turnover without damaging microtubule dynamics

April 30, 2015

David O. - Media:English2006-Nature-MM.pdf

April 16, 2015

Shay - Peptide Amyloid Surface Display SI

April 2, 2015

David B. - Identification of small-molecule binding pockets in the soluble monomeric form of the AB42 peptide

Feb 3, 2015

Hannah - The structured core domain of αB-crystallin can prevent amyloid fibrillation and associated toxicity

Jan 22, 2015

David O - Ensemble Perspective for Catalytic Promiscuity JBC 2011 Exploring protein-folding ensembles PNAS 2004

Jan 8, 2015

Abhi - The heat released during catalytic turnover enhances the diffusion of an enzyme, SI

December 4, 2014

Eri Tau blocks traffic of organelles, neurofilaments, and APP vesicles in neurons and enhances oxidative stress

October 30, 2014

Hannah - Structural Basis for Protein Antiaggregation Activity of the Trigger Factor Chaperone Supplementary Materials

October 9, 2014

Shay - Protein Disulfide Isomerase Interacts with Tau Protein and Inhibits Its Fibrillization [1]

September 19, 2014

Abhi - Amyloid-binding compounds maintain protein homeostasis during ageing and extend lifespan, SI

August 21, 2014

Eri - Systematic Analysis of Nucleation-Dependent Polymerization Reveals New Insights into the Mechanism of Amyloid Self-Assembly, external link

Jul 31, 2014

Hannah - The Amino Terminus of Tau Inhibits Kinesin-Dependent Axonal Transport: Implications for Filament Toxicity

Tau oligomers and tau toxicity in neurodegenerative disease

Jul 10, 2014

Abhi - Metastability of Native Proteins and the Phenomenon of Amyloid Formation; SI

Functional Amyloids As Natural Storage of Peptide Hormones in Pituitary Secretory Granules; SI

May 29, 2014

Hannah - Conformational Recognition of an Intrinsically Disordered Protein

May 15, 2014

Dennis - Strategies for stabilizing superoxide dismutase (SOD1), the protein destabilized in the most common form of familial amyotrophic lateral sclerosis

May 1, 2014

Ben - A single-molecule dissection of ligand binding to a protein with intrinsic dynamics

Apr 18, 2014

Eri - Remarkably Fast Coupled Folding and Binding of the Intrinsically Disordered Transactivation Domain of cMyb to CBP KIX; SI

Apr 3, 2014

Abhi - Full distance-resolved folding energy landscape of one single protein molecule

Mar 13, 2014

Eri - Conformations of intrinsically disordered proteins are influenced by linear sequence distributions of oppositely charged residues

Feb 27, 2014

David - Cooperative folding of tau peptide by coordination of group IIB metal cations during heparin-induced aggregation

Feb 13, 2014

Abhi - Charge interactions can dominate the dimensions of intrinsically disordered proteins

Feb 4, 2014

Eri - Structure and Intermolecular Dynamics of Aggregates Populated during Amyloid Fibril Formation Studied by Hydrogen/Deuterium Exchange

David - Comparative structural and conformational studies on H43R and W32F mutants of copper–zinc superoxide dismutase by molecular dynamics simulation

Abhi - A Dynamic Knockout Reveals That Conformational Fluctuations Influence the Chemical Step of Enzyme Catalysis; SI