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2016 RC-SIRM Symposium and Workshop

Overall Description

The University of Kentucky's NIH-funded Resource Center for Stable Isotope-Resolved Metabolomics (RC-SIRM) presents its one day Metabolomics Symposium on August 6 and a 12-day hands-on Workshop, July 24 through August 5, 2016.
Attendees of the Workshop will gain working knowledge in the application of SIRM to fundamental biochemistry research in the life sciences and bench-to-bedside translational research.
  • ALL EVENTS will occur in the Bio Pharmacy Complex at 789 S. Limestone St. on the campus of the University of Kentucky

Symposium - Stable Isotope-Resolved Metabolomics: from bench to bedside

The one-day Symposium on August 6 will feature presentations and poster sessions from leaders using stable isotope-resolved metabolomics (SIRM) as well as other researchers form around the world in a wide range of research.
This is your chance to hear and meet speakers who use stable isotope labeling and other techniques to investigate metabolic changes in many physiological systems and advancing diagnosis and treatment of many clinical conditions, such as GI, and metabolic disorders, and cancer.
  • The Symposium is open to the public.
    • Registration is free, but the fee for a la carte food is $30.
      • Registration for the Symposium will open at 8:00 am in the Lobby/Atrium of the Bio Pharmacy Complex.
  • There will be poster sessions and Sponsor participation.
    • Poster abstract deadline for the Symposium is July 13, 2016.

Confirmed speakers

  • Clary Clish, Ph.D, Broad Institute, MIT and Harvard
  • John Kurhanewicz, Ph.D, Pharmaceutical Chemistry, University of California, San Francisco
  • Andrew N. Lane, Ph.D, Department of Toxicology and Cancer Biology, Markey Cancer Center; UK College of Medicine
  • Christian Metallo, Ph.D, Jacobs School of Engineering, University of California, San Diego
  • Zhen Qi, Ph.D, Department of Biomedical Engineering, Georgia Institute of Technology
  • A. Dean Sherry, Ph.D, University of Texas Southwestern, Dallas
  • K Sreekumaran Nair, MD, Ph.D, Mayo Clinic
  • Eberhard Voit, Ph.D, Wallace H. Coulter Department of Biomedical Engineering, Georgia Tech and Emory University
  • Chang-Guo Zhan, Ph.D, University of Kentucky, College of Pharmacy

2016 UK Metabolmics Symposium Agenda

Morning Session

  • 8:00 am Registration
    • Poster Assembly
    • Continental Breakfast
  • 8:30 am Introduction and Welcome
    • Richard M. Higashi, Ph.D ,
      • CESB Director, Mass Spectrometry for Center for Environmental & Systems Biochemistry (CESB), University of Kentucky (UK)
  • 8:35 am Overview and Welcome
    • Robert S. DiPaola, MD
      • Dean, UK College of Medicine
  • 8:45 am Session 1: Chair - Andrew Lane, Ph.D, CESB
    • Plenary Lecture:"Hyperpolarized 13C Metabolic Imaging – From Cells to Patients"
      • – John Kurhanewicz, Ph.D, Professor of Radiology and Biomedical Imaging, Urology and Pharmaceutical Chemistry; Director of the UCSF Imaging RIG and Biomedical NMR Lab, University of California San Francisco
    • 9:35 am “Exploring the Metabolome Using Hyperpolarized 13C Tracers Combined with Steady-State 13C NMR Isotopomer Analyses of Tissue Extracts”
      • – A. Dean Sherry, Ph.D, Professor of Chemistry, University of Texas, Dallas
  • 10:25 am Break
    • Poster Session
  • 10:50 am Session 2: Chair - Teresa Fan, Ph.D, CESB
    • "Understanding and Exploiting the Metabolic Flexibility of Cancer Cells Using Flux Analysis”
      • – Christian Metallo, Ph.D, Assistant Professor, Department of Bioengineering, University of California, San Diego
    • 11:40 am "Metabolic Predictors of Cancer and Cardiometabolic Disease in Human Cohorts"
      • – Clary Clish, Ph.D, Director, Metabolite Profiling Broad Institute of MIT and Harvard
  • 12:30 pm Lunch (Pre-Registered Attendees)
    • Poster Session

Afternoon Session

  • 1:40 pm Session 3: Chair - Hunter Moseley, Ph.D, CESB
    • “Computational Inference of Molecular Mechanisms from Metabolic Time Series Data”
      • – Eberhard Voit, Ph.D, Professor and David D. Flanagan Chair in Biological Systems; Co-Director, Integrative BioSystems Institute; The Wallace H. Coulter Department of Biomedical Engineering at Georgia Tech and Emory University
    • 2:30 pm “Understanding Lung Cancer Metabolism Using Computational Systems Biology and Kinetic Models”
      • – Zhen Qi, Ph.D, Research Engineer, Department of Biomedical Engineering, Georgia Institute of Technology
    • 3:20 pm “Exogenous Metabolic Enzymes as Therapies”
      • – Chang-Guo Zhan, Ph.D, Director, Molecular Modeling and Biopharmaceutical Center (MMBC); Director, Chemoinformatics and Drug Design Core of CPRI; Endowed College of Pharmacy Professor in Pharmaceutical Sciences; Professor, Department of Pharmaceutical Sciences, UK College of Pharmacy
  • 4:10 pm Tea Break
    • Poster Session
  • 4:30 pm Session 4: Chair-Richard Higashi, Ph.D, CESB
    • “Structural analysis of epigenetic marking of DNA”
      • – Andrew N. Lane, Ph.D, Professor, Center for Environmental & Systems Biochemistry, Department of Toxicology and Cancer Biology, Markey Cancer Center; UK College of Medicine_
    • 5:20 pm “Metabolomics and Metabolism in Diabetes”
      • – K. Sreekumaran Nair, MD, Ph.D, Professor of Medicine, Endocrinology Mayo Clinic
  • 6:10 pm Closing Remarks: Richard Higashi, Ph.D
  • 6:15 pm Adjourn for dinner (Pre-Registered Attendees)

Workshop - Stable Isotope-Resolved Metabolomics: Experimental design, methods, and data analysis

The 12-day workshop is appropriate for graduate students, technicians, post-docs, and faculty who wish to integrate stable isotope-enabled studies of metabolism into their experimental design.
Attendees of the Workshop will gain working knowledge in the application of SIRM to fundamental biochemistry research in the life sciences and bench-to-bedside translational research.
  • The hands-on Workshop is limited to 20 participants with relevant background: Applications for the Workshop participation will be accepted until July 13, 2016. Workshop registration is $ 3750 and includes the Symposium and on-campus lodging.
  • Some scholarships are available to offset travel costs for students and post-doctoral fellows whose poster abstracts demonstrate excellence in the science of SIRM.
  • NOTE: Attendance at the one-day Symposium is STRONGLY encouraged if you are attending the 12 day Workshop.
The Workshop will feature demonstrations and hands-on wet lab and dry lap practice including:
  • Stable isotope tracer-based biological experiments
  • Cell and tissue processing, polar and non-polar metabolite extraction, and preparation for MS and NMR analysis
  • Data acquisition with the Center’s Mass and NMR Spectrometers
  • Large-scale analysis of MS and NMR data for metabolites and their stable isotope labeling patterns

2016 Metabolomics Workshop Agenda and Schedule

Day 1: Monday July 25, 2016

Morning
  • 8:00 – 9:00
    • Meet in Room 570 Bio Pharm Complex -
    • Orientation- Continental breakfast will be provided
    • Provide Overview of Week.
    • Present Laboratory Rules and OSHA Rules and Personal Protective Equipment
    • Assignment of participants into two Groups
  • 9:00 – 9:30: Introduction to SIRM
    • Led by Dr. Teresa Fan
      • Room 570 Bio Pharm Complex
  • 9:30 – 10:30: Instruction on calculating formulae for enriched media and treatments-
    • Dr. Teresa Fan
      • Room 570 Bio Pharm Complex
  • 10:30 – 11:00: Demonstration of metadata spreadsheet for tracer experiment
    • Teresa Cassel
      • Room 570 Bio Pharmacy Complex
  • Group 1
    • 11:00 – 11:30 Demonstration of cell cultures tracer experiment - Dr. Teresa Fan
    • 11:30 – 11:45 Break
    • 11:45 – 12:15 Demonstration of tissue grinding and methanol rinse/tissue quenching for extraction - Teresa Cassel
  • Group 2
    • 11:00 – 11:30 Demonstration of tissue grinding and methanol rinse/tissue quenching for extraction - Teresa Cassel
    • 11:30 – 11:45 Break
    • 11:45 – 12:15 Demonstration of cell cultures tracer experiment - Dr. Teresa Fan

Afternoon
  • 12:15 – 1:00 Lunch
    • - Room 570 Bio Pharm Complex
      • Lunch will be provided
  • 1:00 – 4:30 Step by step demonstration and participant practice of cell culture harvest and quenching
    • Dr. Teresa Fan
  • 4:30 – 5:30 Demonstration of time course nutrient medium sampling
    • Dr. Teresa Fan
  • 5:30 – 6:00 Guided practice of metadata entry into template and recap/questions
    • Dr. Teresa Fan
      • 570 Bio Pharm Complex

Day 2: Tuesday, July 26, 2016

Morning
  • 8:00 – 9:00 Meet in Room 570 Bio Pharm Complex
    • Watch the extraction video tutorial
    • Continental Breakfast will be provided
  • 9:00 – 12:00 Step by step demonstration and participant practice of polar/non-polar extraction of cell lysates
    • - Dr. Teresa Fan
Afternoon
  • 12:00 – 1:00 Lunch
    • - Room 570 Bio Pharmacy Complex
      • Lunch is provided
  • 1:00 – 5:00 Step by step demonstration and participant practice of polar fraction aliquot and lipid reconstitution
    • - Dr. Teresa Fan
  • 5:00 – 5:30 Demonstration of lyophilization of polar fractions
    • Supervised by Dr. Richard Higashi
  • 5:30 – 6:15 Guided practice of metadata entry into template and recap/questions
    • Dr. Teresa Fan

Day 3 : Wednesday, July 27, 2016

Morning
  • 8:00 – 9:00 Meet in Room 570 Bio Pharm Complex
    • Discussion of lyophilization theory and practice
      • - Led by Dr. Richard Higashi
    • Continental breakfast will be provided
  • 9:00 – 10:00 Step-by-step demonstration and participant practice of media extraction
    • Dr. Teresa Fan
  • 10:00 – 10:15 Break
  • 10:15 – 12:30 Step by step demonstration and participant practice of protein extraction
    • Dr. Teresa Fan

Afternoon
  • 12:30 – 1:30 Lunch -
    • Room 570 Bio Pharm Complex
    • Lunch is provided
  • 1:30 – 4:30 Step-by-step demonstration and participant practice of protein quantification by BCA
    • Dr. Teresa Fan
  • 4:30 – 5:30 Guided practice of metadata entry into template and calculation of protein concentration from BCA data
    • Dr. Teresa Fan,
      • Room 570 Bio Pharmacy Complex
  • 5:30 – 6:00 Recap & Questions

Day 4: Thursday, July 28, 2016

Morning
  • 8:00 – 9:00 Meet in Room 570 Bio Pharm Complex
    • Continental breakfast will be provided
    • Participants will be oriented to the metadata spreadsheet for their solo practice plates
  • 9:00 – 10:00 Participants solo practice of cell culture harvest and quenching
  • 10:00 – 12:00 Participants solo practice of polar non-polar cell extraction
Afternoon
  • 12:00 – 1:00 Lunch
    • Room 570 Bio Pharm Complex
    • Lunch is provided
  • 1:00 – 5:30 Participants solo practice of polar fraction aliquot and lipid reconstitution
  • 5:30 – 6:00 Guided practice of metadata entry into template and recap/questions
    • Dr. Teresa Fan
      • Room 570 Bio Pharmacy Complex

Day 5: Friday, July 29, 2016

Morning
  • 8:00 – 9:00 Meet in Room 570 Bio Pharm Complex
    • Continental breakfast will be provided
  • 9:00 – 12:00 Participants solo practice of protein extraction and BCA analysis
Afternoon
  • 12:00 – 1:00 Lunch - Room 570 Bio Pharm Complex
    • Lunch is provided
  • 1:00 – 5:00 Participants solo practice of protein quantification from BCA analysis and finalize metadata spreadsheet
  • 5:00 – 5:30 Recap & Questions

Day 6: Saturday, July 30, 2016

Morning
  • 8:00 – 9:00 Meet in Room 570 Bio Pharm Complex
    • Roundtable Discussion
    • Continental breakfast will be provided
  • 9:15 – 12:00 Group 1 goes with Dr. Richard Higashi for IC-FTMS & Nanospray Acquisition Demonstrations
  • 9:15 – 12:00 Group 2 goes with Dr. Andrew Lane for NMR Acquisition Demonstration
Afternoon
  • 12:00 – 1:00 Lunch
    • Room 570 Bio Pharm Complex
    • Lunch is provided
  • 1:15 – 4:00 Group 2 goes with Dr. Richard Higashi for IC-FT MS & Nanospray Acquisition Demonstrations
  • 1:15 – 4:00 Group 1 goes with Dr. Andrew Lane for NMR Acquisition Demonstration
  • 4:00 – 4:30 Both Groups: Recap and Questions
    • - Meet in Room 570 Bio Pharmacy Complex

Day 7: Sunday, July 31, 2016

Morning
  • 11:00 am Meet in Room 570 Bio Pharm Complex for transport to buffet brunch

Day 8: Monday, August 1, 2016

Morning
  • 8:00 – 9:00 Meet in Room 570 Bio Pharm Complex
    • Upload metadata spreadsheets into LIMS and overview of week 2 goals
      • Dr. Hunter Moseley
    • Continental breakfast will be provided
  • 9:15 – 12:00 Overview NMR data analysis: isotopomers and their quantification
    • Dr. Andrew Lane
      • Room 570 Bio Pharm Complex
Afternoon
  • 12:00 – 1:00 Lunch
    • Room 570 Bio Pharm Complex
    • Lunch is provided
  • 1:15 – 5:00 Step by step demonstration and participant practice of NMR data analysis
    • Dr. Teresa Fan
      • Room 570 Bio Pharm Complex
  • 5:00 – 6:00 Presentation from data processing to biochemical interpretation: NMR data
    • Dr. Teresa Fan
      • Room 570 Bio Pharm Complex
    • 6:00 – 6:30 Recap & Questions

Day 9: Tuesday, August 2, 2016

Morning
  • 8:00 – 9:00 Meet in Room 570 Bio Pharm Complex
    • Overview on targeted and untargeted chromatography FTMS: example of IC-FTMS and its data processing (lecture and /or video)
      • - Led by Dr. Richard Higashi and/or Dr. Marc Warmoes
    • Continental breakfast will be provided
  • 9:00 – 12:00 Step by step demonstration and participant practice of IC-FTMS targeted data processing
    • - Dr. Marc Warmoes

Afternoon
  • 12:00 – 1:00 Lunch
    • Room 570 Bio Pharm Complex
    • Lunch is provided
  • 1:00 – 4:00 Participants will do targeted data processing of IC-FTMS
  • 4:00 – 5:30 Presentation from data processing to biochemical interpretation: NMR and IC-FTMS data
    • Dr. Teresa Fan

Day 10: Wednesday, August 3, 2016

Morning
  • 8:00 – 9:00 Meet in Room 570 Bio Pharm Complex
    • Introduction to targeted and untargeted analysis using direct infusion FT-MS
      • Dr. Richard Higash
    • Continental breakfast will be provided
  • 9:00 – 12:00 Participants will follow along with demonstration of direct infusion FTMS data processing, example of targeted & untargeted lipid assignment using current Center for Environmental & Systems Biochemistry software PREMISE
    • Dr. Richard Higashi
Afternoon
  • 12:00 – 1:00 Lunch
    • Room 570 Bio Pharm Complex
    • Lunch is provided
  • 1:15 – 3:45 Participants will do targeted lipid assignment practice
    • Supervised by Dr. Richard Higashi
  • 3:45 – 4:00 Break
  • 4:00 – 6:00 Presentation from data processing to biochemical interpretation: NMR and IC-FTMS and lipids data
    • Dr. Teresa Fan

Day 11: Thursday, August 4, 2016

Morning
  • 8:00 – 9:00 Meet in Room 570 Bio Pharm Complex
    • Data Repository at DRCC
      • By Dr. Hunter Moseley
    • Continental breakfast will be provided
  • 9:00 – 12:00 Methods of multivariate analysis of complex data sets: assignment correspondence analysis, correlation analysis, quality control, differential abundance analysis, classification and power analysis using lipid examples. A variety of statistical and computational methods will be covered ranging from t-test and ANOVA to PCA and OPLS-DA to LASSO and Random Forest
    • Dr. Hunter Moseley, Room 570 Bio Pharm Complex
Afternoon
  • 12:00 – 1:00 Lunch
    • Room 570 Bio Pharm Complex
    • Lunch is provided
  • 1:00 – 3:00 Zhen Qi– Research Engineer, Department of Biomedical, Georgia Institute of Technology
    • Title: “Computational modeling of biological systems
      • Room 570 Bio Pharm Complex
  • 3:00 – 3:15 Break
  • 3:15 – 4:15 Norton Kitagawa– Integrated Biology R&D Manager, Agilent Technology
    • Title: “An Integrated Workflow for Qualitative Flux Analysis by Accurate Mass LC/MS”
      • Room 570 Bio Pharm Complex
    • 4:30 – 5:30 Ice Cream Social
      • Bio Pharm Complex Courtyard

Day 12: Friday, August 5, 2015

Morning
  • 8:00 – 8:30 Meet in Room 570 Bio Pharm Complex
    • Continental breakfast will be provided
  • 8:30 – 11:00 Pathway Tracing using isotopomer and isotopollogue distribution data
    • Drs. Teresa Fan and Andrew Lane
  • 11:00 – 1:00 Recap and lunch
Evening
  • 5:45 pm Meet in the Bio Pharm Atrium for transport to dinner with the symposium speakers

Registration

Application deadline for the Workshop is July 13, 2016.
  • The 12-day Workshop registration fee is $3750. This fee includes the one-day Symposium, 12-day workshop, on-campus lodging and breakfast and lunch each day. Attendees are responsible for their own travel arrangements and costs.
  • Some scholarships are available to offset travel costs and registration cost, for students and post-doctoral fellows whose poster abstracts demonstrate excellence in the science of SIRM.
  • NOTE: Attendance at the one-day Symposium is STRONGLY encouraged if you are attending the 12-day Workshop.

* Link to Registration*

Abstract Submission Guidelines

Abstracts for poster presentations for UK Metabolomics Symposium & Workshop 2016 must be submitted by 11:00 pm (EDT) on July 13, 2016, via word document to Alicia Colliver at ajduna0@email.uky.edu.
The Program Committee will review abstracts based on their relationship to human metabolism, novelty, significance of findings and clarity.
  • Submission of abstracts to be submitted via word document to Alicia Colliver at ajduna0@email.uky.edu.
  • For questions regarding abstract submission please contact Alicia Colliver at ajduna0@email.uky.edu, or (859)218-1032.

Format

The total character count (including the title and list of authors) may not exceed 4000 characters, including spaces; or 1 page, including any graphical content or Table.
Each abstract should be sectionalized as follows:
  • Title and Affiliation- first 6 lines.
    • Line 1: Title - maximum 25 words 14 point Bold Arial or Times New Roman. The title should sufficiently represent the content of the abstract. All keywords necessary to identify the subject matter should be included in the title to facilitate electronic retrieval where applicable. Non-standard abbreviations in the title should be avoided. Remainder 11 point Arial or Times.
    • Line 2: Authors - use superscript numbers to refer to affiliations
    • Line 3: Affiliations
    • Line 4: blank
    • Line 5: Abbreviations used in the body of an abstract should be defined at first use.
      • Complex investigational regimens should be clearly identified.
    • Line 6: blank
  • Background - a brief statement indication the purpose(s) of the study
  • Experimental - a brief description of pertinent experimental procedures used.
  • Results - a clear representation of experimental results.
  • Conclusion a statement of conclusion.
  • Acknowledgements - e.g. funding
  • Bibliography

Accommodations

Sponsors

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Topic revision: r27 - 16 Feb 2017, RobertFlight
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