Methodology Journal Club
Organizer: Dr. Gordon Chan
(gordonch@cancerboard.ab.ca)
Methodology journal club, Friday at 12 noon, Medical
Physics conference room
Room 0277.
The aims of the journal club are:
1. Encourage students to develop
analytical and technical abilities
2. Provide an informal forum for students
to develop their presentation skills
3. To promote exchanges of technical
expertise in the department
4. Provide a forum for discussions on how
to incorporate “unfamiliar” techniques into our
research.
The format of the journal club is informal. The
presentation should be ideally 40 minutes to allow
discussion time. Any topics related to research
methodology is appropriate. The presenter can demo
the technique if it is computer related. The
presenter normally chooses a topic and presents the
history of the method, the basis of the method, the
application (s) of the method and finally,
at least one published example
(in a good journal!). Creative variation
of the above is most welcome. Please do not present
a poorly documented method. The presenter is
expected to critically evaluate the method in
comparison with other approaches. If you have any
doubts about your presentation, please contact me in
advance. I will be happy to help with topic
selection, organization of presentation etc.
The presenter should pick up the LCD projector and
laptop computer in the morning of their
presentation. The presentation should be loaded onto
the laptop and tested before presentation start.
Make sure your presentation will work on the
departmental laptop or supply your own laptop.
Caution: different versions of MS PowerPoint might
have conflicts and might not be compatible, please
test your presentation beforehand on the presenting
laptop.
2007-2008 schedule
2006-2007 schedule
2005-2006 schedule
2004-2005 schedule
2003-2004 schedule
2002-2003
schedule
2008-2009 Schedule
1. Sept 19, 2008 Janxun Han (Turner/Hendzel
lab)
RNA-Seq: not a chip (cheap)
but a better approach for transcriptome analysis
2. October 17 , 2008 Larissa Vos (Chan lab)
To be announced
3. Oct 24, 2008 Sheena Macleod (Hitt lab)
To be announced
4. Oct 31, 2008 Nikhil Raghuram (Hendzel Lab)
To be announced
5. Nov 7, 2008 Devon Germain (Godbout lab)
To be announced
6. Nov 14, 2008 Michael Ho (Chan lab)
To be announced
2007-2008 Schedule
1. May 9, 2008 David Lesniak (Abdulkarim/Murray
lab)
2. Apr 25, 2008 Amy Tessier (Murray/Andrew lab)
Taking a closer look
at 3-dimensional cell culture scaffolding
3. Apr 18, 2008 Jianxun Han (Turner/Hendzel lab)
Track cancer cells in
vivo: where are we?
4. Apr 4, 2008 David Sharon (Hitt lab)
Detection of Newly
Synthesized Proteins
5. Mar 28, 2008 Sheena Macleod (Hitt lab)
Fluorescent Labeling
of Proteins
6. Mar 7, 2008 Lorri Martin (Pilarski lab)
"C'-ing genomic
interactions: chromosome conformation capture
technology"
7. Feb 22, 2008 Robert Paproski (Cass lab)
"A novel method for constructing 3D tumors: Enter
the scaffold"
8. Sept 7, 2007 Ryan Heit (Hendzel lab)
“ChIP-Sequencing: Mapping Protein-DNA Interactions”
9. Oct 5, 2007 Janice Kapty (Mercer lab)
“The procedure of Systematic Evolution of Ligands by
Exponential Enrichment (SELEX)”
10. Oct 19, 2007 Alan DeSilva (Hitt lab)
“In vivo imaging using adenovirus”
11. Oct 26, 2007 Miranda Brun (Godbout lab)
"Nonradiochemical DNase I Footprinting: Not So Hot
Anymore"
12. Nov 9, 2007 Inka Toman (Reiman lab)
"Tandem affinity purification: detection of novel
protein-protein interactions"
13. Nov 23, 2007 Robyn MacPherson (Hitt/Shaw lab)
“Using lentivirus for gene transfer: slow and steady
wins the race”
14. Nov 30, 2007 Michael Ho (Chan lab)
“Novel way of analysing phosphorylated proteins in a
controlled manner by incorporating a caged
phosphorylated amino acid in vivo”
15. Dec 7, 2007 Adam Elwi (Cass lab)
"Imaging glycans in vivo: A 'Click' away from
discovery"
16. Dec 14, 2007 Jakub Famulski (Chan lab)
“Protein-protein interaction methods, "You just cant
get enough of this stuff!"
17. Jan 11, 2008 Tina Gao (Godbout lab)
"NetworKINg the phosphorylation network"
2006-2007 Schedule
1. Apr 20, 2007 Sheena Macleod (Hitt lab)
"Use of Quantum Dots in Flow Cytometry"
2. March 23, 2007 Tina Gao (Godbout lab)
"Mapping phosphorylation site using mass
spectrometry: strategies for phosphopeptide
enrichment"
3. Feb 16, 2007 Robert Paproski (Cass lab)
"Imaging molecular processes in vivo: microPET
technologies available for Experimental Oncology"
4. Feb 2, 2007 Raja Mita (Godbout lab)
"Fluorescent nanobodies: Live cell imaging of
proteins"
5. Jan 12, 2007 Amy Tessier (Murray lab)
“Methods for transfection of primary human cells and
hard to transfect cell lines”
6. Dec 15, 2006 Alan DeSilva (Hitt lab)
“Cell-Specific Delivery of siRNAs Using Aptamers”
7. Dec 8, 2006 David Sharon (Hitt lab)
“Enhancing RNAi specificity”
8. Nov 24, 2006 Ryan Heit (Hendzel lab)
"Bimolecular Fluorescence Complementation: studying
in vivo protein interactions"
9. Nov 3, 2006 Dr. Ann Galloway
“Doing your own SNP assays – Discovery, Detection, &
Screening Methods”
10. Oct 20, 2006 Jianxun Han (Turner lab)
“Break the Abbe's law: imaging intracellular
fluorescent proteins at nanometer resolution”
11. Sept 15, 2006 Larissa Vos (Chan lab)
"Mapping protein domains by peptide array"
12. Sept 8, 2006 Jakub Famulski (Chan lab)
"Advances in the detection and visualization of
protein phosphorylation"
2005-2006 schedule
1. April 21, 2006 Dr. Elizabeth Silver (Cass/Weinfeld
lab)
"GeneDesign: Rapid, automated design of
multikilobase synthetic genes"
2. March 31, 2006 Sheena Macleod (Hitt lab)
”Cloning Methods”
3. March 24, 2006 David Sharon (Hitt lab)
”Antisense and Sensibility”
4. February 17, 2006 Dr. Feri Karimi-Busheri (Weinfeld
lab)
Title: “miRNA: Tools and Resources”
5. February 3, 2006 Lorri Martin (Shaw lab)
"From flat to far out - taking tissue culture to the
third dimension"
6. January 27, 2006 Dr. Bart Hazes, Dept. of Medical
Microbiology & Immunology
“On-campus access to advanced new tools in
structural biology and their application to
ribonucleotide reductase structure and function”
7. January 20, 2006 Tina Gao (Godbout lab)
"MicroRNA, the perfect host"
8. January 13, 2006 Alan DeSilva (Hitt lab)
“Gene Transfer Using Adenovirus: Not Just For
Pink-Eye Anymore”
9. January 6, 2006 Jakub Famulski (Chan lab)
“Mirror, mirror on the wall, who is the most soluble
of them all?”
10. December 2, 2005 Larissa Vos (Chan lab)
"MAPPIT: protein-protein interactions”
11. November 18, 2005 Raja Mita (Godbout lab)
"No wounds, no injuries, not even a scratch: A novel
assay to study cell motility"
12. September 9, 2005 Dr. Gordon Chan
"Rapid generation of specific antibodies by enhanced
homologous recombination”
13. October 28, 2005 Ryan Heit (Hendzel lab)
"Studying protein expression and function: Benefits
of laser inactivation of proteins in vivo”
14. October 7, 2005 Adam Elwi (Cass lab)
"An update on protein tagging”
15. September 23, 2005 Jianxun Han (Turner & Hendzel
lab)
"Sleeping Beauty Awakens”
2004-2005 schedule
1. Apr 8, 2005 Jeffrey Chow (Hugh lab)
"Induction of cell damage and reactive oxygen
species production – a drawback to fluorescence
microscopy"
2. Apr 1, 2005 Qiang Shen (Hugh lab)
"A multiplexed homogeneous fluorescence-based assay
for protein kinase activity in cell lysates"
3. Mar 18, 2005 Ming Ye (Hendzel lab)
" Sensitive, real-time measurements of molecular
interactions by flow cytometry"
4. Mar 11, 2005 Alan DeSilva (Hitt lab)
"Go With The FLUO: What Can The FLUOstar Optima Do
For You?"
5. Mar 4, 2005 Jakub Famulski (Chan lab)
“Teaching an old dog (GFP) new tricks”
6. Feb 25, 2005
Dr. Jackie Vogel, McGill University
"Role of the budding yeast central kinetochore in
checkpoint maintenance"
7. Feb 11, 2005 Jing Zhang (Cass lab)
“Protein Labeling: A Few Examples”
8. Jan 28, 2005 Jianxun Han (Hendzel & Turner lab)
“AFM – its application in studying DNA-protein
interaction”
9. Jan 21, 2005 Larissa Vos (Chan lab)
“Real time, in vivo analysis of ubquitination using
BRET (Bioluminescence Resonance Energy Transfer)”
10. Dec 10, 2004 Adam Elwi (Cass lab)
“Structural Genomics”
11. Dec 3, 2004 Dr. Feri Karimi-Busheri (Weinfeld
lab)
“Sister Chromatid Exchange - A powerful technique to
evaluate genotoxicity”
12. Nov 26, 2004 Dr. Rong Zhong Liu (Godbout lab)
“Functional analysis of liver fatty acid-binding
protein (L-FABP) in living cells”
13. Nov 12, 2004 Dr. Lei Li (Godbout lab)
“Using Yeast 3 hybrid system to study RNA-protein
Interactions”
14. Nov 5, 2004 Brent Altheim (Turner lab)
“RNA interference: Gene Silencing by Double Stranded
RNA”
15. Sept 24, 2004 Dr. Gordon Chan
“Data-mining of Protein:Protein interaction
Databases - what is it and what can it do for you?”
16. Sept 10, 2004 Sachin Katyal (Godbout lab)
“Photoshop Basics: How to assemble a figure”
2003-2004 schedule
1. April 30, 2004 Jennifer McQueen (Chan & Hendzel
lab)
“Spinning Disk Confocal Microscope”
2. April 2, 2004 Jonathan Keats (Pilarski lab)
"So What Can NCBI Do For You?"
3. March 19, 2004 Frank Visser (Cass lab)
"Random and site-directed mutagenesis methods"
4. March 12, 2004 Larissa Van Ry (Chan lab)
”Quantum dots”
5. March 5, 2004 Jonathan Keats (Pilarski lab)
"Protein knockdown by targeted ubiquitination"
6. February 13, 2004 Sachin Katyal (Godbout lab)
“RNA-protein interaction”
7. February 6, 2004 Jeff Coles (Godbout lab)
“Matrigel – the invasion of the technique”
8. January 30, 2004 Lori Martin (Shaw lab)
“Fluorobodies: fluorescent proteins with ties that
bind”
9. January 23, 2004 Dr. Sambasivarao Damaraju
“SNP analysis”
10. January 9, 2004 Jakub Famulski (Chan lab)
“What is new with siRNA?”
11. December 5, 2003 Adam Elwi (Cass lab)
"Post-translational modification analysis using mass
spectrometry"
12. November 28, 2003 Dr. Brian Taylor (Pilarski
lab)
“Identification of tumor specific antigens by SEREX
expression cloning”
13. November 21, 2003 Ming Ye (Pilarski lab)
“MAPPIT: A Method for Studying Protein-Protein
Interaction in Mammalian Cells”
14. November 7, 2003 Dr. Mary Hitt
“Adenovirus vectors”
15. October 31, 2003 Nicole Salloum (Turner lab)
“Bio-Bar Codes: Checking out the latest in
ultra-sensitive protein detection”
16. October 17, 2003 Claudia Naber (Shaw lab)
"Atomic Force Microscopy"
17. October 10, 2003 Lorne Cheeseman, Quality
Assurance Director, Quintiles Transnational Japan
K.K.
“Working in a Pharmaceutical Company”
18. October 3, 2003 Kirk McManus (Hendzel lab)
“Fluorescent Correlation...what is it and what can
it do for you?”
19. September 26, 2003 Dr. Gordon Chan
"FeBABE, an old darling with new applications for
mapping protein-protein interactions in vitro"
20. September 19, 2003 Dr. Ann Galloway
“Odyssey infrared imaging system seminar”
2002-2003 schedule
1. May 9, 2003 Jing Zhang (Cass lab)
Structural analysis of memebrane proteins using Cys
substitution mutagenesis
2. May 2, 2003 Dr. Gordon Chan
“iTAP (siRNA and Tandem Affinity Purification)”
3. April 11, 2003 Danny Au (Hugh lab)
"The Human Genome Project"
4. April 4, 2003 Frank Visser (Cass lab)
"The last frontier of structural biology: Membrane
protein structure and function"
5. March 14, 2003 Jennifer Rahn (Hugh lab)
"Intracellular Calcium Signalling"
6. March 7, 2003 Nicole Salloum (Turner lab)
“Lentivral vectors: A new system for gene delivery”
7. February 28, 2003 Claudia Naber (Shaw lab)
“Single Particle tracking”
8. February 14, 2003 Kirk McManus (Hendzel lab)
"New advancements in fluorescent proteins - GFP and
Bis-asenicals for in vivo and in vitro analyses"
9. January 31, 2003 Carmen Tomkinson (Hendzel lab)
“Controlling protein-protein interaction and signal
transduction using an inducible dimerization system”
10. January 17, 2003 Jeff Coles (Godbout lab)
“2D difference in gel electrophoresis: Can you DIGE
it?”
11. December 6, 2002 Adam Elwi (Cass lab)
“A peptide carrier for the delivery of biologically
active proteins into mammalian cells”
12. November 22, 2002 Christina Sereda (Godbout lab)
“Chromatin immunoprecipitations”
13. October 25, 2002 Chris Maxwell (Pilarski lab)
“How about Ribozymes!”
14. October 18, 2002 Sachin Katyal (Godbout lab)
“Advances in 2-hybrid screening”
15. September 27, 2002 Jonathan Keats (Pilarski lab)
"Tracking human cells in xenotransplant models"
16. July 19, 2002 Dr. Gordon Chan
“Making antibody, from antigen preparation to
affinity purification”
17. July 5, 2002 Dr. Gordon Chan
“Gateway cloning system, a follow up on the
Invitrogen Gateway seminar”
18. June 21, 2002 Dr. Gordon Chan
“Small Interfering RNAs, emerging role(s) in
regulation of gene expression and its practical
applications”
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