Satellite Workshops
Join us again this year for a great series of Satellite Workshops! All Satellite Workshops will be held at the Sacramento Convention Center on Saturday March 20, 2010, from 8:00am - 5:00pm, except Targeted Proteomics. The Targeted Proteomics workshop will be held at the campus of the University of California, Davis. Satellite Workshops are an additional fee; please be sure to add the specific workshop to your registration. Lunch and break refreshments will be provided for all Workshop registrants.
Interested in sponsoring one or more of the Satellite Educational Workshops?
Click here for more information about the opportunities available at ABRF 2010.
The National Science Foundation has provided generous financial support for these five educational workshops. This NSF funding allows for up to twenty-five Educational Awards - scholarships for undergraduates, graduate students, postdoctoral fellow, and core personnel to attend the educational workshop of their choice. The workshops will provide an opportunity for scientists, core facility managers, students and postdoctoral fellows interested in life science technologies to receive hands-on training and learn about state-of-the-art biotechnology.
To apply for a Satellite Educational Workshop Award, Click Here
The following workshops will be offered at ABRF 2010 (click on the individual titles for complete workshop descriptions):
- Introduction to Proteomics Platforms: Applications for Qualitative and Quantitative Studies
- Targeted Proteomics
- RNA Demystified for Laboratories
- Next Generation DNA Sequencing Analysis: Platform Independent Analysis You Can Use
- Managing Performance and Productivity in the Laboratory
Introduction to Proteomics Platforms: Applications for Qualitative and Quantitative Studies
Organizers: David Friedman, Vanderbilt University and Hayes McDonald, Vanderbilt University
Presenters: David Friedman, Vanderbilt University and Hayes McDonald, Vanderbilt University
Short Name: Introduction to Proteomics
Workshop Description: This full day educational workshop will provide an overview of proteomics analytical tools and will focus on the role of mass spectrometry in proteomics research. It will be aimed at both beginners and intermediate level users and will be useful for graduate students, post-docs, and principle investigators interested in utilizing these powerful technologies. Mass spectrometry platforms that will be covered include ESI and MALDI sources and how they interface with triple-quadrupole, ion trap, time-of-flight, and other mass analyzers. Practical Applications on some of the major platforms will be discussed, including LC/MS-based, gel-based, and direct MALDI imaging. Quantitative Proteomics approaches will be addressed, including stable-isotope and label-free LC-MS strategies, and Difference Gel Electrophoresis (DIGE/MS) coupled with multivariate statistical analysis.
Schedule:
| 7:00am - 8:00am | Breakfast |
| 8:00am - 8:30am | Introduction to Proteomics |
| 8:30am - 9:30am | Major Technology Platforms Overview: 2DGEL/MS, LC/MS/MS, Maldi Imaging |
| 9:30am - 10:00am | Mass Spectrometry Instrumentation in Proteomics: Maldi, TOF, and TOF/TOF |
| 10:00am - 10:30am | Break |
| 10:30am - 11:00am | Mass Spectrometry Instrumentation in Proteomics (continued): ESI, Triple-quad, Ion Traps, FTICR and Orbitrap |
| 11:00am - 12:00pm | Protein Identification Using Mass Spectrometry and Database Searching |
| 12:00pm - 1:00pm | Lunch |
| 1:00pm - 2:30pm | Qualitative and Quantitative Proteomics: LC/MS/MS Based Applications (Stabel Isotope Labeling, Label Free, MRM/SRM) |
| 2:30pm - 3:00pm | Break |
| 3:00pm - 4:15pm | Qualitative and Quantitative Proteomics: Gel-Based Applications (2DE, DIGE-MS, Multivariate Statistics, Variation, Signal/Noise, and Power Analysis |
| 4:15pm - 4:30pm | Q/A and Discussion Between Speakers and Attendees |
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Targeted Proteomics
Organizers: Brett Phinney, University of California, Davis
Presenters: Brett Phinney, University of California, Davis, Rudy Alvarado, University of California, Davis and Ben Moeller, University of California, Davis
Short Name: Targeted Proteomics
IMPORTANT NOTE: This workshop will be held at the Proteomics Facility at University of California, Davis (www.genomecenter.ucdavis.edu, http://proteomics.ucdavis.edu). Transportation will be provided to and from the Sacramento Convention Center. The course will be limited to 24 attendees. Attendees are required to bring a laptop computer (Windows strongly preferred) to perform data analysis.
Workshop Description: This 1 day, hands on short course will teach the basics of designing, executing and analyzing a targeted proteomics experiment. We will use the ABRF SPRG 2009 quantitative proteomics sample as a reference to design transitions, build methods, run the sample using LC/MS/MS and analyze the data.
The course will cover topics such as:
- Selecting and designing transitions for peptide targets including SIL (stable isotope labeled) and non labeled peptides
- Building a method
- Optimizing of instrumentation parameters
- Queuing and running samples using LC/MS/MS
- Analyzing data and interpreting results
Schedule:
| 7:00am - 8:00am | Breakfast |
| 8:00am - 9:00am |
Lecture: Introduction to Targeted Proteomics |
| 9:00am - 11:00am | Targeted Proteomics Computer Lab: Picking transitions and optimization of instrument parameters Presenters: Brett Phinney and Rudy Alvarado |
| 10:00am - 10:15am | Break |
| 11:00am - 12:00pm | Load ABRF SPRG 2009 samples on TSQ Vantage and acquire data Presenters: Brett Phinney and Rudy Alvarado |
| 12:00pm - 1:00pm | Lunch |
| 1:00pm - 2:00pm | Lecture: Practical Aspects of Quantitation with Triple-Quadrupole Mass Spectrometers Presenter: Ben Moeller |
| 2:00pm - 3:00pm | Analyze data acquired on the QQQ mass spectrometer Presenters: Brett Phinney and Rudy Alvarado |
| 3:00pm - 3:15pm | Break |
| 3:15pm - 4:30pm | Finish up analyzing data acquired on the QQQ mass spectrometer Presenters: Brett Phinney and Rudy Alvarado |
| 4:30pm - 5:00pm | Question and answer session |
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RNA Demystified for Laboratories
Organizers: Sridar Chittur, University of Albany, SUNY
Presenters: Sridar Chittur, University of Albany, SUNY, Thomas Schmittgen, Ohio State University, Lisa White, Baylor College of Medicine, Greg Shipley, University of Texas, Medical School, Scott Tighe, University of Vermont, Deborah Grove, Penn State University
Short Name: RNA Analysis
Workshop Description: The focus of this workshop is on the practical aspects of RNA handling and introducing core facilities and research groups to the basic principles applied in RNA based methods. The course starts with an introduction to best practices for RNA isolation from samples of varying technical difficulty. These fundamentals will enable the audience to handle RNA and manipulate it for various downstream technologies including quantitative PCR, microarrays and sequencing. The next session will focus on qPCR, wherein the topics discussed will be primer design, cDNA synthesis strategies and analysis of amplification data. The workshop will then focus on high throughput nanoscale technologies and digital gene expression. The advantages and caveats of these evolving technologies will be contrasted with the gold standard of Taqman assays. Finally, the last session will focus on miRNA including methods to isolate, quantitate and evaluate the quality of these nucleic acids. Workshop instructors will also discuss various assays and technologies available for validation of miRNA expression levels.
Schedule:
| 7:00am - 8:00am | Breakfast |
| 8:00am - 8:30am | General RNA Handling Techniques Presenter: Sridar Chittur |
| 8:30am - 9:00am | Nucleic Acid Extraction from Difficult Templates Presenter: Scott Tighe |
| 9:00am - 10:00am | Best Practices for Qualitative PCR: MIQE Presenter: Greg Shipley |
| 10:00am - 10:30am | Break |
| 10:30am - 11:30am | Methods for QPCR of miRNA and Other ncRNA Presenter: Thomas Schmittgen |
| 11:30am - 12:00pm | Microarray and Next Gen Sequencing Solutions for Whole Transcriptome Profiling Presented by NuGen Technologies, Inc. |
| 12:00pm - 1:00pm | Lunch |
| 1:00pm - 2:00pm | Single Cell mRNA and miRNA Analysis Presenter: Caifu Chen |
| 2:00pm - 3:00pm | High Throughput Nanoscale Technologies Presenter: Lisa White |
| 3:00pm - 3:45pm | Next Gen Applications for mRNA and miRNA Presenter: Deb Grove |
| 3:45pm - 4:30pm | Informal Discussions Between Speakers and Attendees |
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Next Generation DNA Sequencing Analysis: Platform Independent Analysis You Can Use
Presenters: Chris Sullivan, Oregon State University, Scott Givan, Oregon State University, Suzanne McCahan, A.I. DuPont Hospital for Children, Scott Cain, Ontario Institute for Cancer Research, Angie Hinrichs and Robert Kuhn, UC-Santa Cruz
Short Name: NextGen DNA Sequencing Analysis
IMPORTANT NOTE: 1) All attendees will be required to have a laptop computer with a wireless connection to complete the workshop exercises or be able to partner with another attendee who does have a laptop computer. 2) The workshop will be limited to 40 attendees due to the following limitations during the exercises: internet access and tutors.
Workshop Description: This workshop will have two sessions that will provide information on how to work with data from the three Next Generation DNA Sequencing platforms (Illumina, Roche, Life Technologies) that are currently extensively used in the life sciences.
The morning session will assist participants with PERL code used to automate many of the data management steps from aligning data to formatting the data as input to genome browsers. The session will include practical exercises utilizing actual experimental data with sufficient tutors and time to insure attendee’s adequate instruction. The afternoon session will include presentations on freely available analysis tools available from UCSC (http://genome.ucsc.edu/) and GMOD (http://gmod.org/wiki/GMOD). There will be practical exercises including analysis of the files created in the morning session.
The tools which will be provided in these workshops are necessary for anyone interested in working with next generation sequencing data addressing a molecular biology research question. This is relevant to both core facility personnel who want to provide added value to their research community and to researchers (students and principal investigators) who need to be competent with available genomic computational tools for their research.
Schedule:
| 7:00am - 8:00am | Breakfast |
| 8:00am - 8:15am | Introduction to Next Generation DNA Sequencing Analysis Presenter: Suzanne McCahan, A.I. DuPont Hospital for Children |
| 8:15am - 10:00am | Introduction to PERL Language and Exercises Presenters: Scott Givan and Chris Sullivan, Oregon State University |
| 10:00am - 10:30am | Break |
| 10:30am - 11:30am | Introduction to PERL Language and Exercises (continued) |
| 11:30am - 12:00pm | Sponsor Presentation (Illumina) |
| 12:00pm - 1:00pm | Lunch |
| 1:00pm - 2:30pm | UCSC Browser Tools and Exercises Presenters: Angie Hinrichs and Bob Kuhn, UC-Santa Cruz |
| 2:30pm - 3:00pm | Break |
| 3:00pm - 4:30pm | GMOD Browser Tools and Exercises Presenter: Scott Cain, Ontario Institute for Cancer Research |
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Managing Performance and Productivity in the Laboratory
Organizers: Wayne Collins, Agilent, Inc.
Presenters: Wayne Collins, Agilent, Inc.
Short Name: Laboratory Management
Workshop Description: This one-day workshop takes a strategic view of the laboratory in the context of current quality philosophies to determine options for achieving best management practices. Experiences will be shared to provide insight into the obstacles and expected outcomes for the various management approaches. The workshop is designed for current managers who are seeking innovative ways to improve their leadership skills to develop closer connections with the business and to improve productivity to cope in this challenging environment.
Key Topics:
- Introduction/Overview
- The Lab Manager's Job
- Leadership
- Communication
- Managing Staff Performance
- Staff Competence and Training
- Improving Processes and Productivity
- Six Sigma Basics
- The Lean Lab Basics
- Instrument Maintenance
- Managing Safety
- Conclusions and Discussions
Schedule:
| 7:00am - 8:00am | Continental Breakfast |
| 8:00am - 10:00am | Overview of the Lab Manager's Job, Managing Staff Performance |
| 10:00am - 10:30am | Break |
| 10:30am - 12:00pm | Managing Laboratory Assets |
| 12:00pm - 1:00pm | Lunch |
| 1:00pm - 2:30pm | Managing Laboratory Quality |
| 2:30pm - 3:00pm | Break |
| 3:00pm - 4:30pm | Managing Laboratory Safety, Discussion of Management Issues |
Workshop Leader: Dr. Wayne Collins managed the laboratories of Solvay Polymers in Deer Park, Texas for 24 years prior to joining Agilent Technologies as World-Wide Industry Manager in 2008. Experiences with Solvay in adopting and implementing quality principles as part of a change process have been chronicled in over 50 articles and presentations on laboratory management. Wayne served as the President of ALMA for the year 2000, is the current Editor of Managing the Modern Laboratory, and was the recipient of the 2006 Distinguished Service Award for Laboratory Management sponsored by Agilent Technologies. NOTE: This course will be limited to 32 attendees.
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*Please note that a minimum of 16 registrants must be registered for the Satellite Workshop. If the workshop does not reach this minimum number, the workshop will be cancelled, and registration refunds issued. Be sure to sign up early to ensure that these valuable opportunities are still made available.