March 8 is the deadline to register if you wish to receive printed course material on-site.
The Short Courses for MSACL 2023 will be held In-Person, except for LC-MSMS 101, which will be held BOTH in-person and online, simultaneously.
REGISTER FOR VIRTUAL LC-MSMS 101 -- this virtual course will take place with the MSACL 2023 Monterey students who are onsite, except that
you will have three online guides
(Grace van der Gugten, Deborah French and Lorin Bachmann).
Short courses will be from 8-16 hrs.
Continuing Education will be offered.
You MUST be registered for the conference in order to attend a Short Course. Short Courses have an additional fee.
Short Course Pricing (per HOUR):
March 8 is the deadline to register if you wish to receive printed course material on-site.
EarlyBird Jan 31, 2023
Regular Mar 08, 2023
After Mar 08, 2023
Industry
$40/h
$45/h
$55/h
Academic
$32/h
$35/h
$38/h
Student
$12/h
$15/h
$18/h
All courses are IN-PERSON only, EXCEPT LC-MSMS 101, which will be held both ON-LINE and IN-PERSON.
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.
Financial Disclosures (past 24 months)
: Not reported
Christopher Shuford, PhD Labcorp
Chris Shuford, Ph.D., is Associate Vice President and Technical Director for research and development at Laboratory Corporation of America in Burlington, North Carolina. Chris received his B.S. in Chemistry & Physics at Longwood University and obtained his Ph.D. in Bioanalytical Chemistry from North Carolina State University under the tutelage of Professor David Muddiman, where his research focused on applications of nano-flow chromatography for multiplexed peptide quantification using protein cleavage coupled with isotope dilution mass spectrometry (PC-IDMS). In 2012, Chris joined LabCorp’s research and development team where his efforts have focused on development of high-flow chromatographic methods (>1 mL/min) for multiplexed and single protein assays for clinical diagnostics.
The main goal of this course is to provide an interactive forum in which attendees will be introduced to critical aspects of clinical protein measurements. The topics of this course will be templated on the framework of CLIS guidance document, C64: Quantitative Measurement of Proteins and Peptides by Mass Spectrometry.
Summary
The motivation for using mass spectrometry to quantify proteins in clinical research and in clinical care will be discussed as part of this interactive workshop. Technical topics uniquely affecting quantitative protein and peptides measurements by mass spectrometry will be a point of emphasis. Case studies from assay inception through validation will be presented and participants will work interactively to critique various aspects of clinical proteomic measurements.
Syllabus
Protein vs Peptide Measurands
Workflows
Sample Preparation (Digestion & Enrichment)
Internal standards
Calibration
Validation
Quality control
2066
Short Course : Data Science 101 : Breaking up with Excel: An Introduction to the R Statistical Programming Language @ Steinbeck 1
Daniel Holmes, MD, FRCPC St. Paul’s Hospital
Daniel Holmes did his undergraduate training in Chemistry and Physics at the University of Toronto before deciding to pursue medicine as a career. He attended medical school at the University of British Columbia where pathology became his area of major interest. The strong influence of his academic mentors led him to enter the Medical Biochemistry residency training program at UBC. This allowed him to use his background knowledge of chemistry in application to medicine. Areas of clinical interest are diagnostic lipidology/endocrinology and research interests are in the utilization of mathematics and computer diagnostics to laboratory medicine.
Financial Disclosures (past 24 months)
: Not reported
Expenses/Honoraria: St. Paul's Hospital Consultancy: St. Paul's Hospital Grants/Research Expenses: St. Paul's Hospital Stocks/Bonds: St. Paul's Hospital Board/Committee: St. Paul's Hospital Salary: St. Paul's Hospital Company Ownership: St. Paul's Hospital
Dustin R. Bunch, is an Asst. Director of Clinical Chemistry & Co-Director Laboratory Informatics at Nationwide Children's Hospital. His research focuses small molecule analysis by mass spectrometry in a clinical setting and clinical informatics.
Financial Disclosures (past 24 months)
: Not reported
Segment 1 is also be available ONLINE (pre-recorded) if you can't make it in person.
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Does Excel lag on you when you open a file bigger than 1000 rows? Has it ever changed your data to a date against your will? Are you ready to jump right past Tableau and into the world of Data Science using a real programming language?
Well, your wait is over because at MSACL we again 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.
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 Bunch 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
!!! DOWNLOAD PROGRAM PACKAGES PRIOR TO ARRIVAL ONSITE !!! THERE WILL NOT BE OPEN INTERNET WIFI IN THE CONFERENCE CENTER.
!!! POWER : Make sure your computer is charged to hold power for 4-8 hrs, as power outlets may not be available.
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
Manipulating and cleansing your data
Exporting data to Excel-like format.
Basics of tidyverse: dplyr, filter, mutate, join
Regressions: ordinary least squares,Passing Bablok, Deming, weighted regressions.
Non-linear regressions
Looping: Doing things repeatedly
group_by and summarize
Writing your own functions
Making highly customized figures with base plot or ggplot
Putting it all together projects:
Preparing method comparison regression and Bland Altman plots
Preparing mass spectrometry data for upload to LIS.
2050
Short Course : Data Science 201 : Flexing with R : Databases to Dashboards @ Colton
Shannon Haymond, PhD Northwestern University Feinberg School of Medicine
My lab performs research and clinical testing using mass spectrometry methods, develops new assays, and applies data analytics to enable improved quality and efficiency. My computational pathology efforts are aimed at building the capacity for advanced data analytics in the department through innovations in infrastructure, education, and research to facilitate data-informed decision making for clinical care, operations, and quality assurance.
Financial Disclosures (past 24 months)
: Not reported
Patrick Mathias, MD, PhD University of Washington
Patrick Mathias, M.D., Ph.D., is a board-certified clinical pathologist and Associate Director of Informatics for UW Laboratory Medicine.
Lab medicine has large impact on the general practice of medicine. It is key to correctly diagnosing diseases and selecting the right treatments for patients. Dr. Mathias's goal is to combine technical and medical knowledge to fulfill the triple aim--reduce the per capita cost of health care, improve the health of populations and most importantly improve the patient experience of care.
Dr. Mathias earned his M.D. and Ph.D. from the University of Illinois. His clinical and research interests include clinical informatics, clinical chemistry and molecular diagnostics.
Financial Disclosures (past 24 months)
: Not reported
An introductory R course (including MSACL Data Science 101) and/or experience using R for data analysis
Objectives
To teach learners with a basic background with R how to organize data analysis projects reproducibly using tools such as Quarto, dashboards, and databases.
Summary
Do you have data files that you would like to accumulate over time into an organized, accessible format and then visualize different aspects of the combined data in an interactive, web-based dashboard? If so, this course is for you! Reproducibility is an important principle for making data analysis trustworthy and reliable. Automation enables users to scale their data analysis steps. The R programming language is one of many tools that can help users automate data analysis workflows while adopting best practices in reproducibility, but there are several packages to choose from when developing these skills. In this short course we will introduce a combination of workflows, packages, and tools that help learners set up data analysis projects, develop pipelines for extracting and storing data, and then develop interactive visualizations to gain understanding from the data. First, we will explain how to fully utilize the RStudio integrated development environment with Projects and how the renv package ensures that code consistently produces the same output no matter where or when it is run. Next, we will cover iterative file parsing and demonstrate how this can be linked to lightweight relational databases such as SQLite and DuckDB to build a pipeline for repetitive data loading over time. In the last portion of the course, we will discuss the Quarto scientific publishing system and related visualization tools such as the flexdashboard package. This short course will be interactive, with frequent short exercises to reinforce new concepts. Familiarity with the R programming language, either from an introductory course or self-learning, is highly recommended. Finally, concepts in this short course overlap material taught in previous intermediate R courses at MSACL, but here we will focus putting together the tools to develop reproducible, automated dashboards for visualization of laboratory data and provide updates to include some of the latest developments in the R ecosystem.
Syllabus / Topics covered
Principles of reproducibility
Pick up where you left off with RStudio tools
Taking control of packages with renv
File reading over and over and over
Dude, where’s my data? Organizing data into relational databases
Pulling out your dplyr to grab what you need
Show off your skills with Quarto
Flexing with some sweet dashboards
2063
Short Course : GlycoProteomics 101 : Clinical glyco(proteo)mics by mass spectrometry @ Stevenson 2
Noortje de Haan, PhD University of Copenhagen
Noortje is conducting her post-doctoral research at the Copenhagen Center for Glycomics at the University of Copenhagen, Denmark. Here, she aims to identify tissue glycans that are involved in disease initiation and progression. Previously, she worked as postdoc at the Center for Proteomics and Metabolomics at the Leiden University Medical Center, The Netherlands, where she received her PhD in 2019 on the development and application of mass spectrometry-based methods for the analysis of (antibody) glycosylation. Noortje’s enthusiasm for glycoproteomic-related research started early in her scientific career and this remains a key drive in her current work. She is interested in the development of mass spectrometric methods and data analysis protocols for addressing clinical research questions.
Financial Disclosures (past 24 months)
: Not reported
Constantin Blöchl, PhD Center for Proteomics and Metabolomics, Leiden University Medical Center, The Netherlands
Constantin Blöchl obtained his PhD in Biochemistry at the University of Salzburg, Austria, where he focused on mass spectrometry-driven (glyc)omics approaches to understand dysregulated pathways in cancer. In 2022, he joined the Center for Proteomics and Metabolomics at the Leiden University Medical Center, the Netherlands as a post-doctoral researcher. He is dedicated to the development and implementation of novel analytical methods to capture the vast heterogeneity of antibody glyco- and proteoforms present in the human body. The assessment of clinically relevant structural and functional characteristics of pathological antibodies, for instance in autoimmune diseases, is at the center of his work.
Financial Disclosures (past 24 months)
: Not reported
Did you ever encounter glycans, but you -kind of- neglected them as they seemed too complicated to characterize? Or did you just perform a glycan release to make the analysis of your protein a lot easier? You have no idea how to interpret your data when a glycan is present? Fear no more! We are here to provide you with the basics in the field of mass spectrometric glycomics and glycoproteomics.
The course will start with a historical overview on glycan research (i.e. how did glycans work their way up to being acknowledged as important study objects) and we will guide you through the maze of different nomenclatures. Moreover, although glycans are well known for their complexity, we will reveal to you the “rules of glycan structures” based on known biosynthetic pathways. This will be followed by an in-depth discussion on glyco(proteo)mic mass spectrometric technologies and workflows. In addition, different sample preparation steps and data analysis approaches will be covered. We will close-up with a session about glycomic biomarker discovery.
The course will run over two days and time will be split between lectures and workshops (e.g. how do you recognize a glycan in a mass spectrum and how do you assign it). While not everything can be covered within these two days we will ensure that you will know your “glyco-basics” in the end. Moreover, participants are encouraged to submit any specific glyco-questions they have prior to the course and we will try to discuss them during the course.
Objectives:
Understand glycan nomenclature and biosynthesis to aid mass spectrometry data interpretation.
Know what analytical method to choose for you specific glycomics experiment.
Learn how to interpret MS1 and MS2 data of glycans and glycopeptides.
Know what software to use to aid glyco(proteo)mics MS data processing.
2053
Short Course : LC-MSMS 101 : Getting Started with Quantitative LC-MSMS in the Diagnostic Laboratory @ De Anza 3
Judy Stone, MT (ASCP), PhD, DABCC has worked with LC-MS in diagnostic laboratories since 1999. Her clinical practice involved small molecule method development, instrument to instrument and instrument to LIS interfacing, LC-MS automation, monitoring quality of LC-MS methods in production and staff training for clinical LC-MSMS. She served as faculty chair for the 2009 AACC online certificate program “Using Mass Spectrometry in the Clinical Laboratory”, as a scientific committee member for the MSACL Practical Training track, and was editor-in-chief for the AACC Clinical Laboratory News quarterly feature series on Clinical LC-MS. She enjoys documenting and presenting esoteric as well as absurdly common LC-MS problems in creative ways in order to help trainees learn troubleshooting (and avoid repeating her mistakes).
Financial Disclosures (past 24 months)
: Not reported
Jacqueline Hubbard, PhD, DABCC Beth Israel Deaconess Medical Center, Harvard Medical School
Jacqueline Hubbard received her BS degree in Biochemistry from the University of Vermont. She then earned her MS and PhD in Biochemistry and Molecular Biology from the University of California, Riverside (UCR). Following a one year postdoc at UCR, Dr. Hubbard completed a Fellowship in Clinical Chemistry at the University of California, San Diego Health. She is board certified in Clinical Chemistry by the American Board of Clinical Chemistry. In 2019, she took a position as an Assistant Professor in the Department of Pathology and Laboratory Medicine at the Geisel School of Medicine at Dartmouth and as the Assistant Director of Clinical Chemistry at Dartmouth-Hitchcock Medical Center. There, she focused on developing and validating drugs of abuse assays and SARS-CoV-2 serology testing. After serving as a Lab Director for a small reference laboratory, she joined Beth Israel Deaconess Medical Center as the Co-Director of Clinical Chemistry and Director of Toxicology in 2024. She is also an Assistant Professor of Pathology for Harvard Medical School. Her research focus still includes mass spectrometry method development and toxicology test interpretation.
Financial Disclosures (past 24 months)
: Not reported
Salary: Three Rivers Diagnostics
Grace van der Gugten, B.Sc. Chemistry Alberta Precision Laboratories
Grace discovered her love for clinical mass spectrometry when she began working at St Paul's Hospital in Vancouver in the special chemistry mass spec group with Dr. Dan Holmes in late 2010. Grace was challenged in this role but gained a wealth of knowledge and experience over her 10+ years in the SPH laboratory. She puts this experience and knowledge into use in her current role as Lab Scientist in the Newborn Screening and Biochemical Genetics lab at Alberta Precision Laboratories in Edmonton. Grace loves developing streamlined, easy to use (if possible!) clinical mass spectrometry assays; teaching others and helping others succeed; and troubleshooting (especially when the problem is solved!).
Financial Disclosures (past 24 months)
: Not reported
Lorin Bachmann, PhD, DABCC VCU Health System
Lorin Bachmann joined the VCU Department of Pathology in 2007. She currently serves as Co-Director of Clinical Chemistry, Co-Director of Point-of-Care Testing, Director of the New Kent Emergency Department Laboratory, Technical Advisor for the Operating Room Laboratory, Pathology Outreach and Clinical Trials, and Laboratory Director for multiple VCUHS outreach laboratories. Dr. Bachmann received her PhD in Molecular Medicine from the University of Virginia, followed by a fellowship in clinical chemistry and proteomics research at the University of Virginia. Dr. Bachmann is certified by the American Board of Clinical Chemistry.
Dr. Bachmann serves as the Past Chair of the Chemistry and Toxicology Expert Panel for the Clinical Laboratory and Standards Institute (CLSI) and as a member of the CLSI Board of Directors. She also serves as a member of the College of American Pathologists Accuracy Based Programs Committe.
Dr. Bachmann’s research interests include evaluation and validation of new clinical laboratory assays, clinical laboratory analyzer design, development of mass spectrometry-based assays for the clinical laboratory and standardization of laboratory testing. She serves as a Member of the National Kidney Disease Education Program (NKDEP)/International Federation of Clinical Chemistry Laboratory (IFCC) Joint Lab Working Group, whose goal is to accomplish standardization of urine albumin methods to enable utility of clinical decision thresholds.
Dr. Bachmann has received numerous awards for her contributions to professional societies, education and research. She serves as principal investigator for multiple industry-sponsored studies.
Financial Disclosures (past 24 months)
: Not reported
Grants/Research Expenses: Thermo Fisher, NIST Board/Committee: Clinical Laboratory and Standards Institute
Deborah French, PhD, DABCC (CC, TC) UCSF
Deborah French Ph.D., DABCC (CC, TC) is the Assistant Director of Chemistry and Director of Mass Spectrometry at the University of California San Francisco Clinical Laboratories. Her work currently focuses on the development and validation of LC-MS/MS assays for small molecules, specifically therapeutic drug monitoring, steroid hormones and toxicology. Deborah received her Ph.D. in biochemistry from the University of Strathclyde in Glasgow, Scotland and then completed a postdoctoral fellowship at St. Jude Children’s Research Hospital in Memphis, TN. She subsequently completed a ComACC Clinical Chemistry postdoctoral fellowship under the direction of Dr Alan Wu at the University of California San Francisco and is now board certified in Clinical Chemistry and Toxicological Chemistry by the American Board of Clinical Chemistry.
Adina Badea, PhD, DABCC Lifespan/Rhode Island Hospital & the Warren Alpert Medical School of Brown University
Dr. Adina Badea, PhD, DABCC, earned her BA in Chemistry from Wellesley College, and her PhD in Chemistry from the University of Illinois at Urbana-Champaign. She completed her clinical chemistry and toxicology fellowship at UCSF, where she worked under the supervision of Dr. Alan Wu and Dr. Kara Lynch on developing methods and finding new solutions to current challenges in clinical toxicology testing. Currently, she is Director of Toxicology at Rhode Island Hospital and Assistant Professor of Pathology and Laboratory Medicine at The Warren Alpert Medical School of Brown University, where she focuses on expanding the capabilities of the clinical toxicology lab using high resolution mass spectrometry. Her research interests include bringing state-of-the-art testing to the service of emergency medicine patients and to address public health crises with real-time comprehensive toxicology testing via collaborations with the local Poison Control Center and Department of Health.
Financial Disclosures (past 24 months)
: Not reported
Raymond Suhandynata, PhD DABCC University of California, San Diego
Dr. Suhandynata is an Assistant Professor at the University of California San Diego with appointments in the Skaggs School of Pharmacy and Department of Pathology. He serves as the Associate Laboratory Director for the CMCR reference laboratory and the Associate Director of the UCSD ComACC clinical chemistry fellowship. He completed his Clinical Chemistry fellowship training at the UC San Diego Center for Advanced Laboratory Medicine, under the direction of Dr. Robert Fitzgerald. He has extensive experience with applications of mass spectrometry in research, pre-clinical, and clinical laboratories. Areas of interest include phospho-proteomics to identify novel kinase targets by LC-MS/MS, SUMO proteomics to identify cellular signals involved in chromosome segregation, utilization of MALDI-TOF MS in to identify antibiotic resistant bacteria in the clinical specimens, and development of targeted LC-MRM/PRM assays for small molecules and peptides. Addtionally, he as made significant contributions during the COVID-19 pandemic, validating several COVID-19 serology LDTs at UCSD Health.
Financial Disclosures (past 24 months)
: Not reported
IN-PERSON (Judy Stone, Jacqueline Hubbard) & ON-LINE (Grace van der Gugten, Deborah French, Lorin Bachmann)
REGISTER FOR VIRTUAL LC-MSMS 101 -- this virtual course will take place with the MSACL 2023 Monterey students who are onsite, except that you will have three online guides (Grace van der Gugten, Lorin Bachmann and Deborah French).
Interested in a detailed, practical introduction to clinical quantitative LCMS
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
2074
Short Course : LC-MSMS 201 : LC-MSMS Technology and Techniques in the Clinical Lab @ De Anza 1
Robert Voyksner, PhD LCMS Limited
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 Durham, NC and has been the CEO of the company to date. Under his direction LCMS Limited is working on technological advancements in LC-MS/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 Veterinary 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 LC-MS/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-MSMS, CE/MS and CID interpretation during the past 10 years for MSACL, ASMS, pharmaceutical companies; ISSX, PBA, HPCE and HPLC focused meetings.
Financial Disclosures (past 24 months as of Jan 18, 2025)
: none
This course is designed for the chromatographer and /or mass spectrometrist who wants to be successful in developing methods, optimizing methods, troubleshooting methods and solving problems using LC-MSMS. The course covers the atmospheric pressure ionization (API) techniques of electrospray and gas phase ionization including atmospheric pressure chemical ionization (APCI) and atmospheric pressure photo ionization (APPI) using triple quadrupole, time-of-flight and quadrupole time of flight and orbit trap mass analyzers. Discussions of sample preparation and modes of chromatography will target method development and optimization for the analysis of “real-world” samples by LC/MS. The course highlights the following topics with respect to development and optimization of methods to achieve the best sensitivity, specificity, and sample throughput.
This course focuses on method development method trouble shooting and application for the analysis of both small and large molecules that are clinically relevant. All examples are taken from real-world analyses, performed by Dr. Voyksner at LCMS Limited. The concepts presented in the course are reinforced through numerous problem sets the attendees will work on throughout the 12 hour course.
The last part of the course is an open forum where each attendee is invited to share a current LC-MS/MS issue they face. As a class we work through potential solutions and experiments to be performed to find a solution to the student problem, applying the concepts taught in the class and Dr. Voyksner’s 40 plus years of experience in LC-MS/MS. From past classes this has been the attendee’s favorite part of the class.
Specific topics to be covered include
Understanding API ionization processes for electrospray, APCI and APPI, what affects the ionization process and how to maximize the ionization for compounds of interest.
Understanding the effects of LC columns (dimensions and particles size), flow rate, and mobile phases have upon the separation and LC/MS analysis.
Determining the type of ions that can form by electrospray and APCI, how to interpret the MS and MS/MS spectra and approaches on how to perform qualitative analysis in LC-MS/MS and high-resolution MS/MS.
Understanding important issues that affect quantitative analytical results and how to optimize the method to achieve the best performance, reduce matrix suppression, reduce background and generate the best accuracy and precision.
Exploring what new techniques are available (e.g. direct analysis MS, chip method and MS instrumentation) that can improve the results one can obtain.
Open forum discussing attendees’ specific problems they face in method development or analysis using LC-MS/MS.
2069
Short Course : Metabolomics 201 : Measuring Metabolism from Dried Blood Spots to Microsampling and more @ Steinbeck 2
Tim Garrett, PhD University of Florida College of Medicine
Dr. Garrett has over 20 years of experience in the field of mass spectrometry spanning both instrument and application development. He received his PhD from the University of Florida, under Dr. Richard A. Yost, working on the first imaging mass spectrometry-based ion trap instrument. He has also developed MALDI-based approaches to analyze proteins in bacteria and small molecules in tissue specimens. His current interests include the translation of LC-HRMS, MALDI, DESI and LMJSSP in metabolomics to clinical diagnostics. He is an Associate Professor in the Department of Pathology at the University of Florida, and an Associate Director for the Southeast Center for Integrated Metabolomics (SECIM).
Donald H. Chace, PhD, MSFS, FAACC is the Senior Application and Product Specialist for Capitainer. He is one of the primary developers of newborn metabolic screening using tandem Mass Spectrometry. Developed 25 years ago with the first screening publication in Clinical Chemistry that describes the MS-based newborn screening of PKU, the method is now used to screen millions of infants per year, worldwide. Dr. Chace is an expert in metabolism and clinical chemistry using mass spectrometry as well as microsample analysis, e.g. the dried blood spot. He has published 100 peer reviewed articles and has presented at numerous conferences that focus on areas in Neonatology, Clinical Chemistry, Newborn Screening, Mass Spectrometry and Forensic Science. Dr. Chace is a guest researcher in the newborn screening and molecular biology division at the CDC and recently joined mQACC.
Financial Disclosures (past 24 months)
: Not reported
Salary: Capitainer
(1) Advantages for using DBS and other microsampling techniques in clinical and metabolomics research, discovery, and applications,
(2) Strategies for maximizing analytical success with the mass spectrometer and DBS with examples of existing methods and successful applications.
(3) Understand the application of global metabolomics and targeted metabolomics to disease diagnostics.
Summary
DBS have been used for nearly 60 years in a clinical and research environment specifically in rare disease screening of newborns or health monitoring and treatment to restore a more “normal” metabolism. Although clinical chemistry workflows are still dominated by liquid blood or plasma and immunoassay platforms, they are not necessarily suitable for microsample collection as demonstrated in the choice for newborn screening (200-300 µL) versus 1-10 mL for a venous blood draw. Furthermore, a dried microsample offers better protection from infectious disease during sample handling, is less expensive to ship in the mail, may stabilize some molecules from degradation of active enzyme, light or heat, and has reduce storage requirements during and after sampling. Perhaps the biggest advantage that is now recognized in the “post” pandemic world is remote patient sampling in an ever-expanding telemedicine environment. This course will describe the advantages of filter paper for mass spec workflows in areas of sample cleanup, extraction, manipulation as well as examples of successful analysis. We will provide examples of existing method in use in clinical analysis. As important are its advantages, we will discuss limitations from the lack of precision of classic Guthrie cards because of volume uncertainties to the problems of some mass spectrometry analysis of molecules like proteins. Finally we will correlate these issues with the ever expanding area of metabolomics, how research might benefit from small microsamples and remote sample collection especially on diseases that are rare in a patient that might be a continent away.
Topics covered
Metabolomics/Metabolism
Global analysis (HRMS, HRMS/MS)
Targeted analysis (SRM, MRM, NL, PS)
Rare disease diagnosis
Dried blood spots/microsampling
Collection
Extraction
Quantitation
Comparisons to other matrices (plasma/serum, urine, whole blood)
Tips/tricks
Future perspectives
New collection devices
New approaches
Standardization/QA/QC
Precision/telemedicine
2061
Short Course : Sample Prep 201 : Sample Preparation and Alternative Matrices for LC-MS Assays @ De Anza 2
William Clarke, PhD, MBA, DABCC Johns Hopkins University School of Medicine
Dr. Clarke received his Ph.D. in Analytical Chemistry from the University of Nebraska in Lincoln in 2000, followed by a post-doctoral fellowship in Clinical Chemistry at the Johns Hopkins School of Medicine, ending in 2002. In addition, he received an MBA focused on medical services management from the Carey School of Business at Johns Hopkins in 2007. Following his post-doctoral fellowship, he remained at Johns Hopkins, where he is a Professor in the Department of Pathology, as well as the director of Point-of-Care Testing, Reference Toxicology, and Phlebotomy for the hospital. He also serves as the Vice-Chair for Quality and Regulatory Affairs in the Department of Pathology. His research interests include clinical mass spectrometry, method development and evaluation for therapeutic drug monitoring, clinical toxicology, point-of-care testing, and development/validation of biomarkers for use in drug management. Dr. Clarke has published as author or co-author over 170 peer-reviewed manuscripts or book chapters, and is the Co-Editor of the textbook Contemporary Practice in Clinical Chemistry.
Mark Marzinke, PhD, DABCC, FAACC Johns Hopkins University School of Medicine
Dr. Mark Marzinke is Professor of Pathology and Medicine in the Johns Hopkins University School of Medicine. He is board-certified in Clinical Chemistry by the American Board of Clinical Chemistry. He serves as the Director of the General Chemistry Laboratory at the Johns Hopkins Hospital and the Clinical Pharmacology Analytical Laboratory within the Division of Clinical Pharmacology. Dr. Marzinke is Co-Principal Investigator (PI) of the HIV Prevention Trials Network (HPTN) Laboratory Center (LC) and is the Director of the Clinical Laboratory Core for the Johns Hopkins Center for AIDS Research. His primary research interests are in the areas of antiretroviral pharmacology, HIV prevention science, mass spectrometry, pharmacogenetics and precision medicine, and laboratory automation. Dr. Marzinke has an active research program and serves as a principal investigator (PI) or co-investigator on a number of grants. He has collaborated on research to better characterize the multi-compartment pharmacology of antiretroviral agents when administered using alternative drug delivery systems using liquid chromatographic-mass spectrometric approaches. He has published more than 180 peer-reviewed articles, and holds leadership positions in several societies.
Financial Disclosures (past 24 months)
: Not reported
This course will encompass various sample preparation approaches used for LC-MS assays. The course will highlight not only the importance of sample processing in the clinical laboratory environment, but also illustrate the “fit for purpose” application of processing techniques in clinical mass spectrometry. This course will also discuss the theory behind different specimen preparation methods, strengths and weaknesses of each approach, as well as opportunities for automation. The first section of the course will serve as a primer of the role of upfront sample management, utilizing examples in blood and urine specimen sources. There will also be an introduction to the application of LC-MS approaches in alternative matrices. The second section of the course will elaborate on the foundations established in the first half, and expand into newer technologies and automated alternatives for sample processing. Topics will be covered through lecture, Q&A, Case Studies, and small group exercises.
Topics covered include
Pain points in clinical LC-MS
Overview of specimen processing in laboratory medicine
Off-line and On-line sample processing
Analysis of blood and urine
Alternate body fluid specimens (e.g. CSF, breast milk, tissue, etc.)
Dried specimens as matrices
Automation of sample processing
Learning Objectives
After attending this short course, participants will be able to:
Describe various pain points and challenges in clinical LC-MS;
Discuss the impact of various specimen preparation approaches on LC-MS assay performance;
Implement a fit-for-purpose approach to selection of a specimen preparation approach in their laboratory practice;
Describe alternative specimen types and their potential utility in clinical practice or research.
