|
|
| (113 intermediate revisions by 16 users not shown) |
| Line 1: |
Line 1: |
| − | ==Schedule ''(subject to change)''== | + | ==Schedule== |
| | | | |
| − | December 8: Data - Dylan
| + | At 3:00pm on Wednesdays, using [https://washington.zoom.us/j/93342869302]: |
| | | | |
| − | December 1: JC - David O
| + | Feb 3 - video journal club: [https://youtu.be/gqHUiULsc3E?t=11m42s Michael Woodside, U Alberta] |
| | | | |
| − | November 24: Data - Eri
| + | Feb 10 - video journal club, TBD |
| | | | |
| − | November 17: JC - Eleanor
| + | Feb 17 - Ellie data/practice talk |
| | | | |
| − | November 10: Data - Shay
| + | Feb 24 - Hayli practice talk |
| | | | |
| − | November 3: JC - Shay
| + | Mar 3 - Eleanor practice talk |
| | | | |
| − | October 27: Data - David O
| + | Mar 10 - video journal club, TBD |
| | | | |
| − | October 20: JC - Dylan
| |
| | | | |
| − | October 13: Data - Hannah
| + | ==[[Past Journal Clubs]]== |
| − | | + | |
| − | October 6: JC - David B
| + | |
| − | | + | |
| − | Sept 29: Data - Eleanor
| + | |
| − | | + | |
| − | Sept 22: Data - David B
| + | |
| − | | + | |
| − | Sept 15: JC- Eri
| + | |
| − | | + | |
| − | Sept 8: no meeting
| + | |
| − | | + | |
| − | Sept 1: Data - Eri
| + | |
| − | | + | |
| − | ==Past Journal Clubs== | + | |
| − | | + | |
| − | ===August 25===
| + | |
| − | | + | |
| − | Hannah - [http://www.nature.com/ncomms/2015/150430/ncomms8025/full/ncomms8025.html A mechanistic model of tau amyloid aggregation based on direct observation of oligomers ]
| + | |
| − | | + | |
| − | ===August 18===
| + | |
| − | | + | |
| − | Propagation of error and other stats essentials - [[Media:Stats_Boot_Camp_Aug_2015.pdf|Slides]]; chapters from [[Media:Introduction_to_Errors.pdf|''Practical Physics'']] by G.L. Squires.
| + | |
| − | | + | |
| − | ===August 11=== | + | |
| − | | + | |
| − | David O - http://www.ncbi.nlm.nih.gov/pubmed/25730859
| + | |
| − | | + | |
| − | ===August 4===
| + | |
| − | | + | |
| − | Eleanor - [[File:Watching proteins fold one molecule at a time.pdf]]
| + | |
| − | | + | |
| − | ===July 21===
| + | |
| − | | + | |
| − | David B - [[File:ThiovlavinTAndAmyloidStructure.pdf]]
| + | |
| − | | + | |
| − | ===July 7===
| + | |
| − | | + | |
| − | Abhi - [http://dx.doi.org/10.1016/j.cell.2013.08.035 Molecular Structure of β-Amyloid Fibrils in Alzheimer’s Disease Brain Tissue]
| + | |
| − | | + | |
| − | ===June 9, 2015===
| + | |
| − | | + | |
| − | Eri - [[Media:Bioinformatics2009Toni.pdf|Simulation-based model selection for dynamical systems in systems and population biology]]
| + | |
| − | | + | |
| − | ===May 12, 2015===
| + | |
| − | | + | |
| − | Hannah - journal club [http://hmg.oxfordjournals.org/content/early/2015/04/28/hmg.ddv135.full.pdf+html 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 - [http://pubs.acs.org/doi/pdf/10.1021/bi5011442 Peptide Amyloid Surface Display] [http://pubs.acs.org/doi/suppl/10.1021/bi5011442/suppl_file/bi5011442_si_001.pdf SI]
| + | |
| − | | + | |
| − | ===April 2, 2015===
| + | |
| − | | + | |
| − | David B. - [http://scitation.aip.org/docserver/fulltext/aip/journal/jcp/139/3/1.4811831.pdf?expires=1427748587&id=id&accname=2120949&checksum=908F4EA5116532EDBA60737C21CE0C52 Identification of small-molecule binding pockets in the soluble monomeric form of the AB42 peptide]
| + | |
| − | | + | |
| − | ===Feb 3, 2015===
| + | |
| − | | + | |
| − | Hannah - [http://www.pnas.org/content/111/16/E1562 The structured core domain of αB-crystallin can prevent amyloid fibrillation and associated toxicity]
| + | |
| − | | + | |
| − | ===Jan 22, 2015===
| + | |
| − | | + | |
| − | David O - [http://www.ncbi.nlm.nih.gov/pubmed/22002059 Ensemble Perspective for Catalytic Promiscuity JBC 2011] [http://www.ncbi.nlm.nih.gov/pubmed/15591110 Exploring protein-folding ensembles PNAS 2004]
| + | |
| − | | + | |
| − | ===Jan 8, 2015===
| + | |
| − | | + | |
| − | Abhi - [http://www.nature.com/nature/journal/vaop/ncurrent/full/nature14043.html The heat released during catalytic turnover enhances the diffusion of an enzyme], [http://www.nature.com/nature/journal/vaop/ncurrent/extref/nature14043-s1.pdf SI]
| + | |
| − | | + | |
| − | ===December 4, 2014===
| + | |
| − | Eri [http://jcb.rupress.org/content/156/6/1051.long Tau blocks traffic of organelles, neurofilaments, and APP vesicles in neurons and enhances oxidative stress]
| + | |
| − | | + | |
| − | ===October 30, 2014===
| + | |
| − | Hannah - [http://www.sciencemag.org/content/344/6184/1250494.full.pdf Structural Basis for Protein Antiaggregation Activity of the Trigger Factor Chaperone]
| + | |
| − | [http://www.sciencemag.org/content/suppl/2014/05/07/344.6184.1250494.DC1/Saio.SM.pdf Supplementary Materials]
| + | |
| − | | + | |
| − | ===October 9, 2014===
| + | |
| − | Shay - Protein Disulfide Isomerase Interacts with Tau Protein and Inhibits Its Fibrillization [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3788760/pdf/pone.0076657.pdf]
| + | |
| − | | + | |
| − | ===September 19, 2014===
| + | |
| − | Abhi - [http://www.nature.com/nature/journal/v472/n7342/pdf/nature09873.pdf Amyloid-binding compounds maintain protein homeostasis during ageing and extend lifespan], [http://www.nature.com/nature/journal/v472/n7342/extref/nature09873-s1.pdf SI]
| + | |
| − | | + | |
| − | ===August 21, 2014===
| + | |
| − | Eri - [http://marvin.mchem.washington.edu/wiki/images/f/f8/2008_Xue_Radford.pdf/ Systematic Analysis of Nucleation-Dependent Polymerization Reveals New Insights into the Mechanism of Amyloid Self-Assembly], [http://www.pnas.org/content/105/26/8926.full.pdf?with-ds=yes external link]
| + | |
| − | | + | |
| − | ===Jul 31, 2014===
| + | |
| − | | + | |
| − | Hannah - [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2739042/ The Amino Terminus of Tau Inhibits Kinesin-Dependent Axonal Transport: Implications for Filament Toxicity]
| + | |
| − | ::[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3704193/ Tau oligomers and tau toxicity in neurodegenerative disease]
| + | |
| − | | + | |
| − | ===Jul 10, 2014===
| + | |
| − | | + | |
| − | Abhi - [http://pubs.acs.org/doi/full/10.1021/ja2017703 Metastability of Native Proteins and the Phenomenon of Amyloid Formation]; [http://pubs.acs.org/doi/suppl/10.1021/ja2017703/suppl_file/ja2017703_si_001.pdf SI]
| + | |
| − | ::[http://www.sciencemag.org/content/325/5938/328.full Functional Amyloids As Natural Storage of Peptide Hormones in Pituitary Secretory Granules]; [http://www.sciencemag.org/content/suppl/2009/07/02/1173155.DC1/Maji.SOM.pdf SI]
| + | |
| − | | + | |
| − | ===May 29, 2014===
| + | |
| − | | + | |
| − | Hannah - [http://www.cell.com/biophysj/abstract/S0006-3495(14)00271-9 Conformational Recognition of an Intrinsically Disordered Protein]
| + | |
| − | | + | |
| − | ===May 15, 2014===
| + | |
| − | | + | |
| − | Dennis - [[Media:PNAS-2010-Auclair-21394-9.pdf|Strategies for stabilizing superoxide dismutase (SOD1), the protein destabilized in the most common form of familial amyotrophic lateral sclerosis]]
| + | |
| − | | + | |
| − | ===May 1, 2014===
| + | |
| − | | + | |
| − | Ben - [http://www.nature.com/nchembio/journal/v9/n5/full/nchembio.1213.html?WT.ec_id=NCHEMBIO-201305 A single-molecule dissection of ligand binding to a protein with intrinsic dynamics]
| + | |
| − | | + | |
| − | ===Apr 18, 2014===
| + | |
| − | | + | |
| − | Eri - [[Media:2013 Shammas Clarke.pdf|Remarkably Fast Coupled Folding and Binding of the Intrinsically Disordered Transactivation Domain of cMyb to CBP KIX]]; [[Media:2013 Shammas Clarke SI.pdf|SI]]
| + | |
| − | | + | |
| − | ===Apr 3, 2014===
| + | |
| − | | + | |
| − | Abhi - [[Media:PNAS-2010-Gebhardt-2013-8.pdf|Full distance-resolved folding energy landscape of one single protein molecule]]
| + | |
| − | | + | |
| − | ===Mar 13, 2014===
| + | |
| − | | + | |
| − | Eri - [[Media:2013 Das Pappu.pdf|Conformations of intrinsically disordered proteins are influenced by linear sequence distributions of
| + | |
| − | oppositely charged residues]]
| + | |
| − | | + | |
| − | ===Feb 27, 2014===
| + | |
| − | | + | |
| − | David - [[Media:Cooperative_folding_of_tau.pdf|Cooperative folding of tau peptide by coordination of group IIB metal cations during heparin-induced aggregation]]
| + | |
| − | | + | |
| − | ===Feb 13, 2014===
| + | |
| − | | + | |
| − | Abhi - [[Media:Muller-Spath10complete.pdf|Charge interactions can dominate the dimensions of intrinsically disordered proteins]]
| + | |
| − | | + | |
| − | ===Feb 4, 2014===
| + | |
| − | | + | |
| − | Eri - [[Media:2010_Carulla_Dobson.pdf|Structure and Intermolecular Dynamics of Aggregates Populated during Amyloid Fibril Formation Studied by Hydrogen/Deuterium Exchange]]
| + | |
| − | | + | |
| − | David - [[Media:Muneeswaran_Biophys_Chem_SOD_Mutants.pdf|Comparative structural and conformational studies on H43R and W32F mutants of copper–zinc superoxide dismutase by molecular dynamics simulation]]
| + | |
| − | | + | |
| − | Abhi - [[Media:Science-2011-Bhabha-234-8.pdf|A Dynamic Knockout Reveals That Conformational Fluctuations Influence the Chemical Step of Enzyme Catalysis]]; [[Media:Bhabha-SOM.pdf|SI]]
| + | |
