Translating Pre-Clinical Research to Clinical Patient Care™
MSACL 2015 USSan Diego: Mar 28 - Apr 1 |
Details
MSACL US
MSACL 2015 US Sponsors
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Supporting Societies
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Short Courses
MSACL hosts a diverse offering of Short Courses.
Short Courses cover 1 to 2 days, depending on the course, over the weekend (March 28-29).
*Notes:
- Two day courses are NOT the same courses replicated on two separate days. They are single courses that span two days.
- Unless otherwise noted, courses are from 8:00AM - 4:30PM. Breakfast, Lunch and Coffee Breaks (morning and afternoon are provided).
Clinical MS Review |
Modern Sampling and Sample Preparation Technologies for Clinical Mass Spectrometry
Janusz Pawliszyn, PhD & Barabara Bojko, PhD
Level: 1-3 (Beginner - Advanced)
Length: 1 Day (Saturday)
A Comprehensive Review of Clinical Mass Spectrometry Technology & Techniques, including Miniaturization
Jack Henion, PhD
Level: 2-3 (Intermediate - Advanced)
Length: 2 Days (Saturday - Sunday)
General Interest |
Preparing Manuscripts for Publication: Improving Your Chances for Success
Thomas Annesley, PhD
Level: 0 (General Interest)
Length: 1 Day (Sunday)
ICP-MS |
Clinical and Research Applications using Inductively-Coupled Plasma Mass Spectrometry
Frederick Strathmann, PhD & Carrie Haglock-Adler, MSFS
Level: 1-2 (Beginner - Intermediate)
Length: 1 Day (Saturday)
LC-MS |
Intro to Clinical MS Method Development
Robert Kobelski, PhD
Level: 1-2 (Beginner - Intermediate)
Length: 2 Days (Saturday - Sunday)
Getting Started with Quantitative LC-MS/MS in the Diagnostic Laboratory
Judy Stone, PhD & Lorin Bachmann, PhD
Level: 1-2 (Beginner - Intermediate)
Length: 2 days (Saturday - Sunday)
Understanding and Optimization of LC-MS/MS to Develop Successful Methods for Identification and Quantitation in Complex Matrices
Robert D. Voyksner, PhD
Level: 2 (Intermediate)
Length: 2 Days (Saturday - Sunday)
Development and Validation of Quantitative LC-MS/MS Assays for Use in Clinical Diagnostics
Russell Grant, PhD & Brian Rappold
Level: 3 (Advanced)
Length: 2 Days (Saturday - Sunday)
Metabolomics |
Metabolomics
Gary Siuzdak, PhD & Gary Patti, PhD
Level: 3 (Advanced)
Length: 1 Day (Sunday)
Proteomics |
Introduction to Quantitative Proteomics
Mike MacCoss, PhD & Michael Bereman, PhD
Level: 1-2 (Beginner - Intermediate)
Length: 1 Day (Saturday)
Clinical Proteomics
Andy Hoofnagle, MD, PhD & Cory Bystrom, PhD
Level: 2-3 (Intermediate - Advanced)
Length: 1 Day (Sunday)
Statistics |
Breaking up with Excel: A Newbie's Introduction to the R Statistical Programming Language
Daniel Holmes, MD
&
Stephen Master, MD PhD
Level: 1-2 (Beginner - Intermediate)
Length: 2 Days (Saturday - Sunday)
How to Develop Robust Assays Faster Using Free Data Analysis Tools
Fred Lytle, PhD
Level: 2-3 (Intermediate - Advanced)
Length: 2 Days (Saturday - Sunday)
Toxicology |
General Toxicology
Jeffery Moran, PhD
Level: 1 (Beginner)
Length: 1 Day (Saturday)
Mass Spectrometry Toxicology Applications: Method Development and Validation, Troubleshooting, Triaging Instrumentation, Tips, Tricks and Lessons Learned
Marilyn Huestis, PhD & Karl Scheidweiler, PhD
Level: 1-3 (Beginner - Advanced)
Length: 1 Day (Sunday)
Modern Sampling and Sample Preparation Technologies for Clinical Mass Spectrometry
| Instructor(s): | Janusz Pawliszyn, PhD & Barabara Bojko, PhD |
| Level: | 1-3 (Beginner - Advanced) |
| Length: | 1 Day (Saturday) |
Prerequisites: This course targets an audience with general/intermediate knowledge and experience on sample preparation, separation techniques and mass spectrometry.
Overview: This 1-day course will introduce fundamentals of modern methods of sample preparation for clinical mass spectrometry analysis.
This course will consider all steps in the analytical process, focusing on sampling and sample preparation in particular. Special emphasis will be given to preanalytics (sampling, transport, storage) of specimens, sample clean-up and elimination of matrix effects in subsequent determinations.
The focus will be on specific sample preparation approaches used prior to LC-MS based clinical analysis and comparison with standard approaches like protein precipitation, ultrafiltration, liquid-liquid and solid-liquid extraction. Theory will also be touched upon with an emphasis on common fundamental features among different groups of extraction techniques. Additionally, the strategies to obtain selectivity and specificity of the assay (e.g. use of aptamers, immunosorbents, molecularly imprinted polymers and other molecular recognition strategies) will be discussed. Furthermore, an overview of sample preparation/sample introduction approaches for direct coupling to mass spectrometers will be presented.
The course will discuss pros and cons of each method and compare their workflows based on the published protocols and collected data to provide guidelines to select the best available solution for different applications. A special focus will be on selection of the method for targeted and untargeted analysis in the view of the method characteristics and the investigated matrix (biofluids, tissue and breath analysis). The course will outline availability of the extraction phases and strategies for their selection. The prospect for using the techniques in high-throughput and automated environments, as well as in vivo and for bed-side use (rapid diagnostic tool) will be also presented.
Sampling, preservation and storage issues:
- sample collection approaches
- influence of the container and anticoagulant on the results
- metabolism quenching methods
- effect of storage and transportation conditions on sample stability
- integration of sampling and sample preparation
- solid phase extraction (SPE)
- micro-solid phase extraction (-SPE)
- column switching
- solid phase microextraction (SPME)
- liquid phase microextraction (LPME)
- thin film microextraction (TFME)
- needle trap devices (NTD)
- dried blood spot (DBS)
- extracted biofluid spot (EBS)
- desorption electrospray ionization (DESI)
- surface-enhanced laser desorption/ionization (SELDI)
- matrix-assisted laser desorption ionization (MALDI)
- paper spray
- nonoelectrospray
- blade spray
- direct analysis in real time (DART)
- modifications of the above technologies
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $70 | $84 | $105 |
| Academic / Non-Profit | $210 | $252 | $315 |
| Commercial / Industry | $350 | $420 | $525 |
Course Instructors:
Prof. Janusz Pawliszyn is the inventor of several analytical technologies including Solid Phase Microextraction, Needle Trap Device and Whole Column Imaging Detection and a professor in the Department of Chemistry, University of Waterloo, Canada. He is the author of over 500 journal publications, 20 book chapters, and over 250 invited/plenary lectures. He has received several prestigious awards for his scientific achievements, and SPME is considered one of the six “Great Ideas of a Decade” by ACS Analytical Chemistry journal and WCID is now considered the Platinum Standard for characterizing proteins and peptides and it is widely accepted in Biotech Industry. He presently holds the Canada Research Chair and NSERC Industrial Research Chair in New Analytical Methods and Technologies.
Dr. Barbara Bojko obtained her medical diagnostician diploma, MSc, PhD (Hon) and DSc from pharmaceutical sciences with the specialization in pharmaceutical biochemistry. She is the author of over 60 journal publications. She has over ten years of academic research and teaching experience. She was awarded several times for scientific achievements. Currently, she is a research associate in Professor Janusz Pawliszyn’s group and associate professor and chair of Department of Pharmacodynamics and Molecular Pharmacology at Collegium Medicum University of Nicolaus Copernicus. Her research is mainly focused on biomedical applications of SPME, especially on drug monitoring therapy, metabolomics and in vivo analysis for clinical applications.
A Comprehensive Review of Clinical Mass Spectrometry Technology & Techniques, including Miniaturization
| Instructor(s): | Jack Henion, PhD |
| Level: | 2-3 (Intermediate - Advanced) |
| Length: | 2 Days (Saturday - Sunday) |
Prerequisites: Students who sign up for this advanced course should either have five years or more of personal LC/MS/MS experience and familiarity with the scientific literature or have taken one or more introductory courses which cover atmospheric pressure ionization (API) techniques as well as the basics involved in routine LC/MS and LC/MS/MS analyses.
Overview: This two-day course presents a comprehensive overview of technology and techniques of analytical mass spectrometry and from that foundation extends into exciting recent developments.
- Sample preparation
- Topics: Types of extraction, Objectives of extraction, Prefractionation techniques, Sample types, Issues to consider, Protein precipitation, Liquid-solid extraction, Liquid-liquid extraction, Solid-phase extraction, 96-well format SPE, Mixed mode SPE, On-line SPE, Automation, Micro SPE (pipette tip-based), Ultrafiltration, Affinity techniques, Electrophoretic extraction, Quechers, SISCAPA, Dried blood spots (DBS)
- Advanced separation techniques
- Topics: HPLC, HILIC, Porous Graphite Carbon, UPLC NanoHPLC, Capillary Electrophoresis (CE), Differential Mobility Spectrometry (DMS)
- Ionization techniques for MS
- Topics: Electrospray ionization (ESI), Nano ESI, Atmospheric pressure chemical ionization (APCI), Atmospheric pressure photoionization (APPI), Matrix assisted laser desorption ionization (MALDI), LAESI, Direct analysis in real time (DART), Desorption electrospray ionization (DESI), Atmospheric sampling analysis probe (ASAP)
- To Discuss: New ionization techniques which may be used with or without on-line separation science technology such as HPLC, UPLC or capillary electrophoresis (CE). This area has evolved into ambient ionization techniques such as DESI, DART, ASAP, etc. -- examples and comparisons of the potential and pitfalls associated with these techniques will be explored.
- Mass Analyzers
- Quadrupoles, Ion traps, Time-of-Flight (TOF), Orbitraps, Hybrid mass analyzer systems, Ion mobility spectrometers, FTMS
- To Discuss: Developments and improvements in mass analyzers including linear ion traps, FTMS, time-of-flight (TOF), orbitraps, and accelerator mass spectrometry (AMS), the latter currently being applied to micro-dosing experiments by the pharmaceutical industry. Issues such as full-scan acquisition rates, high-resolution mass spectrometry (HRMS), the importance and usefulness of exact mass measurements for qualitative and quantitative analysis, and the analytical merits compared with modern SRM LC/MS experiments will be discussed with many practical examples and applications. The latter will include clinical chemistry issues as well as pharmaceutical, food safety, environmental and industrial examples.
- Imaging and profiling by MS
- Topics: MALDI, DESI, LAESI, LES
- To Discuss: The technique of MALDI and its applications to tissue imaging as well as liquid extraction surface analysis (LESA) employing nano-electrospray. Chip-based nanoscale HPLC separations coupled with the benefits of nano-electrospray with a focus on modern strategies to obtain lower detection limits with the benefits of reduced matrix suppression and more uniform analyte response.
- High resolution MS
- Topics: Fundamentals, Mass Defects, Isotopic patterns, Mass axis calibration, Types of HRMS systems, Qual/Quan Analysis, Data mining processes, Future directions
- Miniaturization in MS
- Topics: Purdue University "Mini 11", Torion, Microsaic, Advion expression
- Synergistic Integration
- To Discuss: Developing technologies are likely to be important aspects of modern mass spectrometry and its expansion to new future applications. Ion mobility spectrometry (IMS) and portable mass spectrometers could lead to point-of-care applications in due time. A relevant lecture includes an introduction to the interpretation of CID mass spectra employing a combination of MS/MS data and full-scan exact mass assignments which demonstrates the complimentary benefits of these combined data.
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $110 | $132 | $165 |
| Academic / Non-Profit | $330 | $396 | $495 |
| Commercial / Industry | $550 | $660 | $825 |
Instructor: Jack Henion, PhD
Jack Henion is Professor Emeritus of Toxicology at Cornell University in the Analytical Toxicology Section of the Diagnostic Laboratory within the College of Veterinary Medicine. He is also a co-founder, Chairman and CSO of Advion BioSciences (ABS), Inc., located in Ithaca, New York. Dr. Henion's work in LC/MS relates to the analysis of real-world samples common to pharmaceutical, environmental, and biochemical problems. The instructor has published extensively in the areas of conventional capillary GC/MS as well as LC/MS, SFC/MS, IC/MS, and CE/MS using atmospheric pressure ionization (API) technologies with quadrupole, ion trap, and time-of-flight mass spectrometers.
Preparing Manuscripts for Publication: Improving Your Chances for Success
| Instructor(s): | Thomas Annesley, PhD |
| Level: | 0 (General Interest) |
| Length: | 1 Day (Sunday) |
Prerequisites: None necessary. Introductory course.
Overview: Scientific publication is an important and necessary activity for researchers. Being a good researcher, however, does not automatically make you a good writer. Good science is the foundation of a scientific paper, but how the science is presented also strongly influences whether a paper gets accepted for publication. This session focuses on key elements of writing a scientific paper, starting with the first word put onto a page to the final printed product:
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After this session, participants will be able to:
- bring greater clarity and consistency to a scientific paper;
- describe the features that distinguish papers accepted for publication;
- organize the major sections of a scientific paper; and
- create more effective tables and figures.
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $70 | $84 | $105 |
| Academic / Non-Profit | $210 | $252 | $315 |
| Commercial / Industry | $350 | $420 | $525 |
Instructor: Thomas Annesley, PhD
Thomas M. Annesley, Ph.D., is Professor of Clinical Chemistry at the University of Michigan. He is the Deputy Editor of the journal Clinical Chemistry, and has more than 20 years of experience in journal editing and teaching about biomedical writing.
Clinical and Research Applications using Inductively-Coupled Plasma Mass Spectrometry
| Instructor(s): | Frederick Strathmann, PhD & Carrie Haglock-Adler, MSFS |
| Level: | 1-2 (Beginner - Intermediate) |
| Length: | 1 Day (Saturday) |
Prerequisites: General knowledge of clinical laboratory techniques and performance characteristics.
Overview: This course is designed to provide an introduction to the use of ICP-MS in the clinical laboratory as well as its applications in clinical research. The course will cover the components of current ICP-MS systems as well as the principles of measurement and basics of mass spectrometry as applicable to ICP-MS. An overview of sample preparation techniques, method validation aspects and regulatory considerations will be discussed. In addition, an overview of the clinical context to the most commonly measured elements will be provided. Research applications using ICP-MS as well as hyphenated techniques such as HPLC-ICP-MS, CE-ICP-MS, LA-ICP-MS will be highlighted. A brief overview of the applications of mass cytometry will be presented.
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $70 | $84 | $105 |
| Academic / Non-Profit | $210 | $252 | $315 |
| Commercial / Industry | $350 | $420 | $525 |
Co-Instructor: Frederick Strathmann, PhD, DABCC (CC, CT)
Assistant Professor of Pathology, University of Utah
Medical Director of Toxicology, Associate Scientific Director of Mass Spectrometry, ARUP Laboratories
Dr. Strathmann is a Medical Director in Toxicology and the Associate Scientific Director of Mass Spectrometry at ARUP Laboratories, a tenure-track assistant professor of Pathology and an associate member of the Interdepartmental Program In Neuroscience at the University of Utah School of Medicine. He received his MS and PhD in Pathology and Laboratory Medicine from the University of Rochester where he studied early glial cell development of the central nervous system, after which he focused on glial cell biology in development and repair paradigms as a postdoctoral fellow in the department of Biomedical Genetics at the University of Rochester. He completed a ComACC accredited clinical chemistry fellowship at the University of Washington in Seattle where he focused on small molecule analysis by mass spectrometry, quantitative multiplexed immunoassays in solid tissue diagnosis and developing automated laboratory quality metrics. His basic research interest is in exploring how astrocytes influence their environment during development, disease and repair of the central nervous system. His clinical focus is in trace and toxic element analysis, chronic pain and drugs of abuse.
Co-Instructor: Carrie Haglock-Adler, MSFS
Research & Development Scientist, ARUP Laboratories
Carrie is a Research & Development Scientist in the Toxicology group at ARUP Laboratories. She is responsible for developing new tests and supporting and improving current tests for the clinical toxicology and trace and toxic elements laboratories. Carrie received her B.S. in toxicology from Ashland University in Ashland, Ohio in 2006 and completed a M.S. in forensic science from Virginia Commonwealth University in Richmond, Virginia in 2008. Since graduation, Carrie has worked at ARUP Laboratories, where she has primarily worked with LC-MS/MS, LC-TOF and ICP-MS.
Intro to Clinical MS Method Development
| Instructor(s): | Robert Kobelski, PhD |
| Level: | 1-2 (Beginner - Intermediate) |
| Length: | 2 Days (Saturday - Sunday) |
Prerequisites: None
Overview: This course is designed for the person who will be responsible for implementing, improving, or developing clinical analysis methods using hyphenated mass spectrometry techniques. It will emphasize the basic science associated with chromatographic separation and detection using mass spectrometry with an emphasis on applying that science to produce valid, reliable and robust clinical analysis methods.
The course will cover:
- Fundamentals of separation
- Chromatographic theory
- Gas chromatography and how to optimize separations
- Liquid chromatography (HPLC & UHPLC) and how to optimize separations
- Fundamentals of mass spectrometry
- Quadrupole mass analysis
- Time-of-Flight mass analysis
- Orbi-trap mass analysis
- Tandem mass spectrometry (triple quad and Q-TOF)
- Qualitative analysis
- Quantitative analysis
- Quality control and assurance.
Critical analysis of published and hypothetical analysis methods will be used to highlight proper integration of the various aspect of clinical MS analysis.
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $110 | $132 | $165 |
| Academic / Non-Profit | $330 | $396 | $495 |
| Commercial / Industry | $550 | $660 | $825 |
Lead Instructor: Robert Kobelski, PhD
Bob Kobelski earned a PhD in analytical chemistry from SUNY at Buffalo in a past millennium. He has held positions at DuPont, Johnson & Johnson's Personal Product Company and Hewlett-Packard's Analytical Products Group and Inkjet Supplies Business Unit. He has been active in clinical mass spectrometry since 1997 and has recently retired as Lead Chemist and program officer for the chemical component of the Laboratory Response Network at the Centers for Disease Control and Prevention where he is responsible for method development, training, quality assurance and control for a network of 55 emergency response clinical chemistry laboratories. Bob is currently the Principal Scientist of Resolution Sciences LLC providing training and consulting in chromatography as well as analytical and clinical mass spectrometry.
Getting Started with Quantitative LC-MS/MS in the Diagnostic Laboratory
| Instructor(s): | Judy Stone, PhD & Lorin Bachmann, PhD |
| Level: | 1-2 (Beginner - Intermediate) |
| Length: | 2 days (Saturday - Sunday) |
Prerequisites:
Overview: Is your laboratory under pressure to purchase an LC-tandem MS or is the ROI you wrote last year haunting you now? This short course is designed for attendees implementing quantitative LC-tandem MS for patient testing who have laboratory medicine experience but no mass spectrometry training - CLS bench analysts, supervisors, R&D scientists, and laboratory directors. Theoretical concepts necessary for a robust implementation of clinical mass spectrometry will be presented – but the emphasis is on practical recommendations for:
- LC-MS/MS system purchasing
- site preparation and installation
- defining preliminary MSMS and LC parameters for your first method
- selecting and optimizing sample preparation for your first method
- choosing internal standards, solvents, and water, making reagents and calibrators
- adjusting sample preparation, LC and MSMS parameters to achieve the desired assay performance
- establishing data analysis & review criteria and an interface to the LIS
- pre-validation stress testing and method validation
- preventative maintenance and troubleshooting
- maintaining quality in production.
Our goal is to present just enough theory so you can report high quality results, while opening a window to the depth and complexity of clinical mass spectrometry such that your appetite is whetted to learn more.
Previous exposure to the principles of clinical method validation, either didactic or practical, is assumed. A glossary of common LC-MSMS terms/acronyms, and diagrams delineating basic LC and MSMS instrument components and functions will be emailed to attendees a week prior to the beginning of the course. This material will also be addressed at the beginning of the course, but the initial learning curve can be steep and review prior to the course will be beneficial if you have absolutely no previous exposure with LC-MSMS.
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $110 | $132 | $165 |
| Academic / Non-Profit | $330 | $396 | $495 |
| Commercial / Industry | $550 | $660 | $825 |
Co-Instructor: Lorin Bachmann, PhD, DABCC
Lorin is Assistant Professor of Pathology and Co-Director of Chemistry at Virginia Commonwealth University. Dr. Bachmann’s areas of interest include implementation of LC-MS/MS in the clinical laboratory and laboratory test standardization. She serves as a member of document development committees for CLSI C57; Mass Spectrometry for Androgen and Estrogen Measurements in Serum and CLSI C62; Liquid Chromatography-Mass Spectrometry Methods, and has provided many lectures on practical implementation of clinical mass spectrometry.
Understanding and Optimization of LC-MS/MS to Develop Successful Methods for Identification and Quantitation in Complex Matrices
| Instructor(s): | Robert D. Voyksner, PhD |
| Level: | 2 (Intermediate) |
| Length: | 2 Days (Saturday - Sunday) |
Prerequisites: General knowledge of laboratory techniques associated with HPLC and mass spectrometry and some hands-on experience with running an LC/MS system.
Overview: This course is designed for the chromatographer / mass spectrometrist who want to be successful in developing methods, method optimization and solving problems using LC/MS/MS. The course covers the atmospheric pressure ionization (API) techniques of electrospray, pneumatically assisted electrospray and atmospheric pressure chemical ionization (APCI) and atmospheric pressure photo ionization (APPI) using single quadrupole, triple quadrupole, time-of-flight and ion trap mass analyzers.
Discussions of sample preparation and chromatography will target method development and optimization for the analysis of "real-world" samples by LC/MS/MS.
The course highlights the following topics with respect to optimization a method to achieve the best sensitivity, specificity and sample throughput:
- Optimization ionization in API techniques,
- understanding and minimizing matrix suppression,
- relative merits of various LC column lengths, particle sizes and column diameters for LC/MS/MS analysis,
- introduction into the interpretation of MS/MS spectra,
- important issues in LC/MS/MS quantitation, and
- optimization of an quantitative analysis.
Applications of LC/MS/MS to analyze compounds of clinical interest in biological matrices will be discussed throughout the course to emphasize the topics covered.
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $110 | $132 | $165 |
| Academic / Non-Profit | $330 | $396 | $495 |
| Commercial / Industry | $550 | $660 | $825 |
Instructor: Robert D. Voyksner, PhD
Dr. Robert D. Voyksner received his B.S. in Chemistry at Canisius College in 1978 and his Ph.D. at the University of North Carolina at Chapel Hill in 1982. He was employed at Research Triangle Institute (RTI) from 1983-2001 as the director of the mass spectrometry facility and has been responsible for developing extraction, separation and mass spectrometric methods for biologically and environmentally significant compounds. His work earned him the Presidents Award, the highest award within RTI. In 2001 he co-founded LCMS Limited in Raleigh, NC and has been the President of the company to date. Under his direction LCMS Limited is working on technological advancements in LC/MS, offering services to pharmaceutical, clinical and agrochemical industry for solving unique problems by LC/MS/MS and offering training in LC/MS/MS and MS/MS interpretation and on LC/MS/MS instrumentation. Dr Voyksner is also an Adjunct professor at the North Carolina a School of Vetinary Medicine and at The University of North Carolina School of Pharmacy.
Dr. Voyksner's research in mass spectrometry has resulted in over 230 publications and presentations, primarily in the area of HPLC/MS. He has served on the Board of Directors for The American Society For Mass Spectrometry (ASMS), is on the organization committee for The Montreux LC/MS Symposium and was the organizer for the 1995, 1999, 2003 and 2007 Montreux LC/MS Symposia. Dr. Voyksner has taught over 100 courses on LC/MS, CE/MS and CID interpretation during the past 10 years for ASMS, pharmaceutical companies; ISSX, PBA, HPCE and HPLC focused meetings.
Development and Validation of Quantitative LC-MS/MS Assays for Use in Clinical Diagnostics
| Instructor(s): | Russell Grant, PhD & Brian Rappold |
| Level: | 3 (Advanced) |
| Length: | 2 Days (Saturday - Sunday) |
Prerequisites: The target audience should have extensive familiarity with LC-MS/MS systems.
Overview: This 2-day course will briefly introduce the key aspects of the LC-MS/MS experimental workflow and then focus on processes and experimental designs for assay development and analytical validation of assays to be employed within clinical diagnostics.
The first day will describe method development in detail, including how-to guides for initial optimization of mass spectrometry systems, chromatographic development and sample preparation schemes. Techniques and technologies for streamlining analytical performance will also be described. Transitional experiments from development to validation will be discussed in detail to stress test methodologies prior to analytical validation.
Day two will cover all details pertinent in validation of LC-MS/MS analytical workflows. Experimental designs for all aspects of validation, putative acceptance criteria and analytical solutions will be shown. Key validation criteria of selectivity, carry-over, matrix effect, accuracy, precision, linearity, stability and inter-assay correlation will be described using multiple case studies.
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $110 | $132 | $165 |
| Academic / Non-Profit | $330 | $396 | $495 |
| Commercial / Industry | $550 | $660 | $825 |
Co-Instructor: Russell Grant, PhD
Dr. Grant received his PhD in chromatographic and mass spectrometric technologies from Swansea University in 1995. He continued his scientific training in various industrial settings which have included: senior scientist at GSK, principal scientist at Cohesive Technologies, Technical Director at Eli Lilly and Director of Mass Spectrometry at Esoterix Endocrinology.
Dr. Grant has pioneered the use of direct injection technologies, chromatographic systems multiplexing, utility of automation and new analytical platforms for application in bioanalytical applications. His research goals are focused upon improvements in speed, sensitivity and quality of LC-MS/MS analytical systems and assays.
Co-Instructor: Brian Rappold
Brian Rappold is the Scientific Director at Essential Testing in Collinsville, Illinois. He is a renowned expert in the field of method development and validation of mass spectrometry assays for clinical diagnostic use, teaching courses on this subject at numerous scientific conferences. His extensive knowledge and clinical perspective has granted him several opportunities to present his research internationally on the topics of hydrophilic interaction liquid chromatography for bio-analysis, multiplexed mass spectrometric detection of amino acidopathies and the origins and solutions of ion suppression in electrospray ionization. He currently serves as the chair of Clinical Chemistry for the American Society for Mass Spectrometry (ASMS) and has served on the Metabolomics and Small Molecule Analysis/Toxicology Scientific Committee for The Association for Mass Spectrometry: Applications to the Clinical Laboratory (MSACL). His research interests include the realization of open-access mass spectrometric systems and antibody-capture/mass spectrometry applications to diagnostic medicine.
Metabolomics
| Instructor(s): | Gary Siuzdak, PhD & Gary Patti, PhD |
| Level: | 3 (Advanced) |
| Length: | 1 Day (Sunday) |
Prerequisites: LC/MS hands on experience.
Overview:
| The following topics will be particularly emphasized:
These topics will be covered in detail and students will be given the opportunity to test related software via hands-on tutorials. |
This course is designed for the chromatographer / mass spectrometrist who wants learn about metabolomics. The course covers sample preparation, choice of ionization method and mass spectrometer, as well as data preparation and analysis, structural characterization and biomarker validation. Discussions will include the optimization of sample preparation for metabolite extraction and protein removal, as well as choosing the most appropriate ionization method and mass spectrometer.
The development of LC gradients and MS conditions will be covered. During the course there will be an emphasis on data preparation and analysis, including peak picking, alignment and retention time correction, differential profiling, and multivariate statistics including principal components analysis (PCA). The course also highlights the following topics: metabolite structural characterization using MS/MS for fragmentation data, and accurate mass measurements using FTMS. Further characterization approaches will be discussed, as well as biomarker validation and ultimately the transfer to the clinic.
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $90 | $108 | $135 |
| Academic / Non-Profit | $270 | $324 | $405 |
| Commercial / Industry | $450 | $540 | $675 |
Co-Instructor: Gary Siuzdak, PhD
Gary Siuzdak is Director of the Scripps Center for Metabolomics and Professor of Chemistry and Molecular Biology at The Scripps Research Institute in La Jolla, California (http://masspec.scripps.edu/). He is also Faculty Guest at Lawrence Berkeley National Laboratory and served as Vice President of the American Society for Mass Spectrometry. His research includes developing novel mass spectrometry-based approaches in metabolomics, nanostructure-based imaging, microorganism analysis, and enzyme activity assays. He has over 170 peer-reviewed publications and two books, "Mass Spectrometry for Biotechnology" and the "The Expanding Role of Mass Spectrometry in Biotechnology", 2006 Edition.
Co-Instructor: Gary Patti, PhD
Dr. Patti is a professor at Washington University School of Medicine in the Departments of Genetics, Chemistry, and Medicine. Dr. Patti's laboratory focuses on both the application and the development of metabolomic technologies, including those related to both mass spectrometry as well as nuclear magnetic resonance. Specifically, his laboratory has developed novel workflows and bioinformatic approaches to expedite the identification of metabolites during untargeted profiling. His laboratory also has a keen interest in discovering new metabolites and pathways, particularly those related to chronic pain of neuropathic origin.
Introduction to Quantitative Proteomics
| Instructor(s): | Mike MacCoss, PhD & Michael Bereman, PhD |
| Level: | 1-2 (Beginner - Intermediate) |
| Length: | 1 Day (Saturday) |
Prerequisites: Basic mass spectrometry knowledge
Overview: This course will introduce the researchers to the basics of performing quantitative peptide measurements by mass spectrometry. We will cover the basics of discovery and targeted methods, sample preparation, quality control, sample preparation, and software for method building and data analysis. To prepare participants for performing quantitative proteomics proteomics experiments in their own labs we will focus on the following topics:
- Instrumentation for proteomics
- Basics and challenges of NanoLC
- Introduction to quantitative analysis. Challenges for proteomics measurements
- System suitability and quality control
- Basics of complex protein mixture sample preparation
- Tips and tricks from instructor experience
- Use of Skyline for targeted proteomics method building and data analysis.
- Next generation methods
- Case studies
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $80 | $96 | $120 |
| Academic / Non-Profit | $240 | $288 | $360 |
| Commercial / Industry | $400 | $480 | $600 |
Instructor: Mike MacCoss, PhD
The focus of the MacCoss laboratory is in the development and application of cutting edge mass spectrometry based technologies for the analysis of complex protein mixtures. They have developed a number of tools and methods to expedite the development of quantitative protein measurements by mass spectrometry. Dr. MacCoss' primary area of expertise is in protein biochemistry, nanoflow liquid chromatography, mass spectrometry instrumentation, and computational analysis of mass spectrometry data. The MacCoss laboratory has been actively applying these tools to important areas of biology including the basic biology of aging, protein-protein interactions, insulin signaling, measurement of protein half-life, transcriptional regulation, characterization of post-translational modifications, proteogenomics, and clinical diagnostics.
Instructor: Michael Bereman, PhD
Michael Bereman is an assistant professor in the Department of Biological Sciences and a member of the Center for Human Health and the Environment (CHHE) at North Carolina State University in Raleigh, NC. The central focus of his research is to develop innovative, quantitative methodologies to investigate the interplay between environment and genetic factors with respect to human health and disease. The assessment of a vast number of environmental exposures on disease risk remains a critical – yet unfulfilled challenge. His efforts focus on the continued improvements in technology with applications in two key areas: 1) Development of assays to quantify the degree of overall exposure in biological fluids using existing and novel protein modifications; and 2) The elucidation of the impact of various environmental exposures on the etiology of diseases using both human specimens and animal models. Prior to joining NCSU, he held a post-doctoral position in the Department of Genome Sciences at the University of Washington where he focused on instrumentation development, targeted assays for determining protein metabolism, and quality control in proteomics.
Clinical Proteomics
| Instructor(s): | Andy Hoofnagle, MD, PhD & Cory Bystrom, PhD |
| Level: | 2-3 (Intermediate - Advanced) |
| Length: | 1 Day (Sunday) |
Prerequisites: Practical knowledge of quantitative mass spectrometry.
Overview: This course will explore the background of clinical proteomics and approaches to method development and validation. We will provide the motivation for using mass spectrometry to quantify proteins in clinical research and in clinical care. The promise of mass spectrometry to improve the accuracy and precision of results is only realized with robust methods. In order to prepare participants to begin to develop their own robust methods for quantification we will focus on the following topics:
- Why mass spec for peptides and proteins
- Optimization of digestion and other aspects of the method
- Internal standards
- Calibration
- Immunoaffinity enrichment
- Validation
- Quality control
- Case studies
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $80 | $96 | $120 |
| Academic / Non-Profit | $240 | $288 | $360 |
| Commercial / Industry | $400 | $480 | $600 |
Co-Instructor: Andy Hoofnagle, MD, PhD
Dr. Hoofnagle's laboratory focuses on the precise quantification of recognized protein biomarkers in human plasma using LC-MRM/MS. In addition, they have worked to develop novel assays for the quantification of small molecules in clinical and research settings. His laboratory also studies the role that the systemic inflammation plays in the pathophysiology of obesity, diabetes, and cardiovascular disease.
Co-Instructor: Cory Bystrom, PhD
Dr. Cory Bystrom serves as Director of Research and Development at Cleveland HeartLab where he is responsible for novel biomarker identification, validation and commercialization with an emphasis on quantitative biological mass spectrometry. Dr. Bystrom has over a decade of experience as a laboratory leader and chemist. Prior to joining CHL, he was at Quest Diagnostics Nichols Institute as associate director of research and development with responsibilities for development of tests and identification of analytical strategies for commercialization of new biomarkers. He also has held research and development roles at Oregon Health Science University, Fonterra, and Pharmacia and Upjohn.
Breaking up with Excel: A Newbie's Introduction to the R Statistical Programming Language
| Instructor(s): | Daniel Holmes, MD & Stephen Master, MD PhD |
| Level: | 1-2 (Beginner - Intermediate) |
| Length: | 2 Days (Saturday - Sunday) |
Prerequisites:
- knowledge of Excel
- able to bring a laptop
- able to pre-install software on their laptop...Namely: R and R-studio
- willingness to break up with Excel
Overview: Have you ever tried to do Deming regression in Excel only to discover that it is not available? Have you had your figure rejected by a journal because the resolution was not good enough? Have you wished that you could figure out a way to stop manually transcribing your LC-MS/MS results into the LIS?
Well, your wait is over because this year at MSACL we will be offering a course for complete programming newbies that will help you get going analyzing real data related to LC-MS/MS assay development, validation, implementation and publication. The only background expected is the ability to use a spreadsheet program. The skills that you will acquire will allow you to take advantage of the many tools already available in the R language and thereafter, when you see that your spreadsheet program does not have the capabilities to do what you need, you will no longer have to burst into tears. You will be empowe-R-ed.
The course will be run over two days and time will be evenly split between didactic sessions and hands on problem solving with real data sets. Drs Holmes and Master will adopt a “no student left behind policy”. Students will be given ample time to solve mini problems taken from real life laboratory work and focused on common laboratory tasks. All attendees will need to bring a laptop with the R language installed R Studio interface installed. Students may use Windows, Mac OSX or Linux environments. Both R and R studio are free and open-source. No cash required.
Students should be prepared for learning what computer programming is really like. This may involve some personal frustration but it will be worth it.
Obtaining the Software
Instructions for installing the R language are here: http://cran.r-project.org/
Instructions for installing R Studio are here: http://www.rstudio.com/
Course Description
The course will cover:
- The major types of R variables: vectors (numerical, character, logical), matrices, data frames and lists.
- The important classes: numeric, character, list and changing between them
- Importing data from Excel
- Dealing with non-numeric instrument data: the “<10”s and “>1000”s.
- Manipulating your data: sub-setting, which, match, sort, unique, cut
- Simple statistical tests: mean, median, quantiles (normal ranges), t-tests, ANOVA, Wilcoxon.
- Data merges: matching rows between sets
- Exporting data to Excel-like format.
- Regressions: Ordinary Least Squares,Passing Bablok, Deming, weighted regressions.
- Non-linear regressions
- Looping: Doing things repeatedly
- Writing your own functions
- Making highly customized graphs: scatter plots, regression lines, histograms, box plots, qq-plots
- Putting it all together projects:
- Preparing method comparison regression and Bland Altman plots
- Preparing mass spectrometry data for upload to LIS.
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $90 | $108 | $135 |
| Academic / Non-Profit | $270 | $324 | $405 |
| Commercial / Industry | $450 | $540 | $675 |
Co-Instructor: Daniel Holmes, MD
Clinical Associate Professor, Department of Pathology and Laboratory Medicine, University of British Columbia
Daniel Holmes did his undergraduate degree in Chemical Physics from the University of Toronto with a focus on Quantum Mechanics. He went to medical school at the University of British Columbia (UBC) where he also did his residency in Medical Biochemistry. He is a Clinical Associate Professor of Pathology and Laboratory Medicine at UBC and Division Head of Clinical Chemistry at St. Paul's Hospital in Vancouver. Interests include laboratory medicine statistics, clinical endocrinology, clinical lipidology and clinical mass spectrometry. Assay development efforts in the last two years have focused on assays specialized endocrine testing.
Co-Instructor: Stephen Master, MD PhD
Assistant Professor of Pathology and Laboratory Medicine at the Hospital of the University of Pennsylvania
How to Develop Robust Assays Faster Using Free Data Analysis Tools
| Instructor(s): | Fred Lytle, PhD |
| Level: | 2-3 (Intermediate - Advanced) |
| Length: | 2 Days (Saturday - Sunday) |
Prerequisites: Experience with Excel-based data analysis and familiarity with basic statistical concepts.
Overview: Every analytical method development project and every method validation involves data analysis. Everyone involved in method development knows the basic, classical statistics usually applied to problems of precision, accuracy and stability. In real experiments, however, sometimes data are not well behaved. Further, in method development, factors often interact with each other in complex ways making robust method development time consuming and difficult. To develop more robust methods faster, better data analysis tools are needed.
Using free data analysis tools, and real world examples, this course will give participants a solid, understandable description of "classical" statistical methods for processing well-behaved data. We will then show where problems arise with real data such as outliers, unequal variances, etc., and how to use modern robust statistical methods for producing more reliable results. We will show how the basic ideas of regression analysis lead to powerful experimental design techniques that can improve the speed and robustness of method development.
Students will be taught how to use the free statistics oriented language "R" to easily perform calculations that are difficult or impossible to do correctly using spreadsheets.
Topics will include:
- Use of classical statistics - strengths and weaknesses
- Robust methods to improve statistical analysis
- Applications: QC sample analysis and calibration
- Analysis of Variance (ANOVA) & experimental design Data
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $90 | $108 | $135 |
| Academic / Non-Profit | $270 | $324 | $405 |
| Commercial / Industry | $450 | $540 | $675 |
Instructor: Fred Lytle, PhD
Fred E. Lytle received his B.S. degree in chemistry from Juniata College in 1964 and earned his Ph.D. degree in analytical chemistry at The Massachusetts Institute of Technology in 1968. He joined the faculty at Purdue University that same year, being promoted to Associate Professor in 1974, Professor in 1979, and Professor Emeritus in 2008. In May 2008 he joined the technical staff of Indigo BioSystems where he is a corporate Fellow.
Throughout his tenure at Purdue he taught a nationally-recognized graduate course on numeric and electronic methods of signal-to-noise enhancement. He is currently developing numeric and computational algorithms for data processing in pharmaceutical applications. During his tenure at Purdue he received numerous teaching awards. At the national level he has received the American Chemical Society Division of Analytical Chemistry Award in Chemical Instrumentation, and the American Chemical Society Award in Analytical Chemistry. In 2011 his teaching of numeric methods was recognized by the J. Calvin Giddings Award for Excellence in Education.
General Toxicology
| Instructor(s): | Jeffery Moran, PhD |
| Level: | 1 (Beginner) |
| Length: | 1 Day (Saturday) |
Prerequisites: None
Overview: The General Toxicology short course has been developed to provide scientists background in general toxicological principles. This series of lectures will review the definition of toxicants and the basic science behind uptake/distribution and biotransformation pathways that lead to excretion. This is important for laboratories charged with developing new testing strategies for drugs and emerging agents of concern when analytical testing strategies are not readily available.
The additional half-day training will use synthetic marijuana aminoalkylindoles as a timely example to emphasize the need for this basic understanding. Aminoalkylindoles are thought to be produced in China and marketed in consumer products now being sold in the US. Humans are being exposed and injured at unprecedented rates, and clinical, forensic, and public health laboratories are now challenged with assaying these new drugs of abuse. When synthetic marijuana first emerged little was known about how these substances were metabolized, and human tests were not available. The information shared in this course reveals the process of developing liquid chromatography tandem mass spectrometry (LC-MS/MS) assays now being used to screen for these drugs.
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $80 | $96 | $120 |
| Academic / Non-Profit | $240 | $288 | $360 |
| Commercial / Industry | $400 | $480 | $600 |
Instructor: Jeffrey Moran, PhD
Dr. Moran received his doctorate in Toxicology from the University of Arkansas for Medical Sciences (UAMS) in 2001 and an American Chemical Society (ACS) approved Bachelor of Science degree in 1996 from Arkansas Tech University. Dr. Moran has been working in human health toxicology and environmental chemistry since 1993, and today, he is the Branch Chief for Environmental Chemistry at the Arkansas Department of Health and is Faculty in the College of Medicine at UAMS, Department of Pharmacology and Toxicology. His research focuses on delineating biotransformation pathways involved in the metabolism of a variety of drugs, environmental toxicants, endogenous molecules and xenobiotics. Currently, Dr. Moran represents one of the leaders in developing analytical approaches for synthetic cannabinoid analysis. He has authored or co-authored several peer reviewed articles featuring synthetic cannabinoids, and his 'K2' work has been featured in stories produced through mainstream media outlets, like Scientific American and the Los Angles Times.
Mass Spectrometry Toxicology Applications: Method Development and Validation, Troubleshooting, Triaging Instrumentation, Tips, Tricks and Lessons Learned
| Instructor(s): | Marilyn Huestis, PhD & Karl Scheidweiler, PhD |
| Level: | 1-3 (Beginner - Advanced) |
| Length: | 1 Day (Sunday) |
Prerequisites: None
Overview: Over the last 15 years, our National Institute on Drug Abuse research tools have transformed from gas chromatography mass spectrometry to liquid chromatography tandem mass spectrometry (LC-MS/MS) to high resolution mass spectrometry (HRMS). This course introduces method development and validation for qualitative and quantitative LC-MS/MS and HRMS analysis through specific examples including cannabinoids quantification in blood, oral fluid and breath, anti-retrovirals quantification in meconium, non-targeted acquisition HRMS for identifying novel psychoactive substances, and determining primary metabolic targets with human hepatocytes and HRMS. We present examples from our laboratory demonstrating these approaches and illustrating potential pitfalls. Important skills are how to select the most appropriate instrument to solve your analytical problem and the required complexity of sample preparation. The new Scientific Working Group for Forensic Toxicology (SWGTOX) Guidelines for Method Validation are demonstrated, and the challenges of troubleshooting LC-MS/MS and HRMS instrument problems are shared. Navigating and mastering the challenges of LC-MS/MS and harnessing its power is the subject of this short course.
| Registration Rates for This Short Course | EarlyBird | Regular | Late |
| Student / Post-Doc (Trainee) | $80 | $96 | $120 |
| Academic / Non-Profit | $240 | $288 | $360 |
| Commercial / Industry | $400 | $480 | $600 |
Co-Instructor: Professor Dr. Dr. (h.c.) Marilyn A. Huestis
Marilyn A. Huestis is Chief, Chemistry and Drug Metabolism, IRP, National Institute on Drug Abuse, NIH and Adjunct Professor, School of Medicine, University of Maryland. Her research program seeks to discover mechanisms of action of cannabinoid agonists and antagonists, effects of in utero drug exposure, and the neurobiology and pharmacokinetics of novel psychoactive substances. Professor Huestis is interested in the disposition of drugs and metabolites in a wide variety of biological fluids and tissues following controlled drug administration; data that provide a scientific database for interpreting drug concentrations in alternative matrices. She has published 352 peer-reviewed manuscripts. Professor Huestis received a Doctor Honoris Causa from the Faculty of Medicine, University of Helsinki in Finland in 2010. Other important awards include, 2015 Distinguished Fellow Award from the American Academy of Forensic Sciences (AAFS), The International Association of Forensic Toxicologists (TIAFT) Alan Curry Award in 2010, the American Association for Clinical Chemistry Outstanding Contributions in a Selected Area of Research Award in 2008, the International Association of Therapeutic Drug Monitoring and Clinical Toxicology (IATDMCT) Irving Sunshine Award in 2007, the AAFS Rolla N. Harger Award in 2005, and the Irving Sunshine Award for Outstanding Research in Forensic Toxicology in 1992. The journal Clinical Chemistry recently featured her as an “Inspiring Mind”. She currently serves on the National Commission on Forensic Sciences, the World Anti-doping Agency’s Prohibited List Committee, the Scientific Working Group on Toxicology (SWG-TOX), Transportation Research Board Committee on Alcohol and Other Drugs, and the National Safety Council’s Alcohol, Drugs and Impairment Division Executive Board. Professor Huestis is past president of the Society of Forensic Toxicologists and The International Association of Forensic Toxicologists, and past Chair of the Toxicology Section of the American Academy of Forensic Sciences.
Co-Instructor: Dr. Karl Scheidweiler
Dr. Scheidweiler received his Ph.D. from the University of Rochester, Department of Pathology in 2002 studying the pharmacokinetics and actions of methylecgonidine, a component of crack cocaine smoke. He has spent the past 12 years as a postdoctoral fellow and staff scientist at the National Institute on Drug Abuse, Intramural Research Program, National Institutes of Health in Baltimore, MD working with Dr. Marilyn A. Huestis in the Chemistry and Drug Metabolism Section (CDMS). He has helped conduct human laboratory studies and outpatient clinical trials investigating drug metabolism in order to understand, treat, and prevent drug abuse and dependence. CDMS studies monitor the effects of drug levels and drug deprivation on behavior, performance and physiological effects. A large portion of his work has been leading individual and team projects developing and validating analytical methods for measuring licit and illicit drugs in blood, urine and alternative matrices (i.e. hair, sweat, oral fluid, breath, meconium and breast milk), and recently leading our use of high resolution mass spectrometry to determine the metabolic targets for novel psychoactive substances.
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