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Home Mass Spectrometry & Proteomics Core Proteomics Affinity Group Utah Proteomics Affinity Group Summer Workshop

Join us July 2026 for the
2nd Annual Utah Proteomics Summer Short Course
to be held at
Brigham Young University

2025 Meeting

Utah Proteomics Affinity Group
presents the
1st Annual Utah Proteomics Summer Short Course

July 14-17, 2025

Our Fundamentals in Proteomics course will familiarize participants with the foundations of mass spectrometry (MS)-based proteomics experimental design, sample preparation, LC-MS/MS equipment handling, and data analysis tools. The course will include a balanced mix of classroom lectures from University of Utah and Brigham Young University Investigators U of U and BYU Investigators and hands-on training!

Course Location:

Crocker Science Center
University of Utah
1390 Presidents’ Circle
Salt Lake City, UT 84112

Course Description:

  • Introduction to MS-based proteomics, experimental design, and common assays
  • Hands-on protein digestion techniques for bottom-up proteomics.
  • Theory and applications of nano-electrospray liquid chromatography (LC)-MS on the ThermoFisher Scientific Exploris 480 and the Bruker timsTOF Pro2.
  • Fundamentals of quantitative proteomics using both isobaric labeling and label free data independent analysis.
  • Hands-on data analysis techniques using the open-source software packages Fragpipe 22.0, DIA-NN 1.9.1, and Perseus 2.0.11.

Registration fee $100, all materials and lunches included!
This course is limited to 20 participants. Prospective participants will be waitlisted after capacity has been reached.
Cancellations before June 19th will be eligible for a full refund.
No refunds will be issued for cancellations after June 19th. NO EXCEPTIONS

We would like to thank our sponsors:

The U of U CoP, HCI, CVRTI, and HSC Cores

for their generous support of the proteomics research community in the state of Utah.

Organizers

Dr. Sarah Franklin
Associate Professor

CVRTI
U of U
Mr. Ryan Bia
Research Associate

CVRTI
U of U
Dr. Brandon Gassaway
Assistant Professor

Department of Chemistry and Biochemistry
BYU
Dr. Martin Golkowski
Assistant Professor

Department of Pharmacology & Toxicology
U of U
Dr. Allison Manuel
Associate Director

HSC Cores Mass Spectrometry and Proteomics Core
U of U
Dr. Christopher Tracy
Director of Mass Spectrometry Core Facility

Department of Chemistry and Biochemistry
BYU

Schedule

Day 1Crocker Science Center (Classroom – #108 | Wet lab – #109)
8:00 – 8:45amIntro to Proteomics (lecture) – Dr. Brandon Gassaway (BYU)
8:45 – 9:00amBreak
9:00 – 10:00amProteomics Sample Preparation Strategies (lecture) – Dr. Martin Golkowski (U of U)
10:00 – 10:15amBreak
10:15am – 12:30pmProtein Digestion (wet lab) – Dr. Allison Manuel, Dr. Martin Golkowski and Mr. Ryan Bia (U of U)
Student Research Presentations (1 during DTT incubation and 2 during IAA incubation)
12:30 – 1:30pmLunch
1:30 – 2:30pmStudent Research Presentations (3)
2:30 – 4:00pmProtein Digestion (wet lab) – Dr. Allison Manuel, Dr. Martin Golkowski and Mr. Ryan Bia (U of U)
Day 2Crocker Science Center (Classroom – #108 | Wet lab – #109)
8:00 – 9:30amFinish protein digestion (wet lab) – Dr. Allison Manuel, Dr. Martin Golkowski and Mr. Ryan Bia (U of U)
9:30 – 10:15amStudent Research Presentations (3)
10:15 – 10:30amBreak
10:30 – 11:30amIntro to LC-MS/MS analysis (lecture) – Dr. Chris Tracy (BYU)
11:30am – 12:30pmStudent Research Presentations (3)
12:30 – 2:00pmLunch and travel to medical school campus (meet in Pharmacy Parking Lot)
2:00 – 4:00pmExploris480 and timsTOF tutorial (wet lab) – Dr. Allison Manuel and Dr. Martin Golkowski (U of U)
Day 3Health Science Education Building (Room #4100B)
8:00 – 8:45amProteomics Data Analysis (lecture) – Dr. Allison Manuel (U of U)
8:45 – 9:00amBreak
9:00 – 9:45amStudent Research Presentations (3)
9:45 – 10:00amBreak
10:00 – 11:00amProtein Quantitation using Isobaric Labeling and DIA (lecture) – Dr. Brandon Gassaway (BYU) and Dr. Allison Manuel (U of U)
11:00am – 12:00pmStudent Research Presentations (3)
12:00 – 1:00pmLunch
1:00 – 4:00pmHands-on Data Analysis (DDA, DIA and Perseus)  – Dr. Allison Manuel (U of U)
Day 4Health Science Education Building (Room #3515B)
8:00 – 9:00amProteomics Applications in Pathology Research (lecture) – Dr. Sarah Franklin (U of U)
9:00 – 9:45amStudent Research Presentations (3)
9:45 – 10:00amBreak
10:00 – 10:45amStudent Research Presentations (3)
10:45 – 11:00amBreak
11:00am – 12:00pmR studio (lecture)  –  Dr. Paul Stewart (U of U)
12:00 – 1:00pmLunch
1:00 – 4:00pmStatistical Data Analysis using R studio – Dr. Paul Stewart (U of U)
— Course Evaluation —
Day 1Crocker Science Center (Classroom – #108 | Wet lab – #109)
8:00 – 8:45amIntro to Proteomics (lecture) – Dr. Brandon Gassaway (BYU)
8:45 – 9:00amBreak
9:00 – 10:00amProteomics Sample Preparation Strategies (lecture) – Dr. Martin Golkowski (U of U)
10:00 – 10:15amBreak
10:15am – 12:30pmProtein Digestion (wet lab) – Dr. Allison Manuel, Dr. Martin Golkowski and Mr. Ryan Bia (U of U)
Student Research Presentations (1 during DTT incubation and 2 during IAA incubation)
12:30 – 1:30pmLunch
1:30 – 2:30pmStudent Research Presentations (3)
2:30 – 4:00pmProtein Digestion (wet lab) – Dr. Allison Manuel, Dr. Martin Golkowski and Mr. Ryan Bia (U of U)
Day 2Crocker Science Center (Classroom – #108 | Wet lab – #109)
8:00 – 9:30amFinish protein digestion (wet lab) – Dr. Allison Manuel, Dr. Martin Golkowski and Mr. Ryan Bia (U of U)
9:30 – 10:15amStudent Research Presentations (3)
10:15 – 10:30amBreak
10:30 – 11:30amIntro to LC-MS/MS analysis (lecture) – Dr. Chris Tracy (BYU)
11:30am – 12:30pmStudent Research Presentations (3)
12:30 – 2:00pmLunch and travel to medical school campus (meet in Pharmacy Parking Lot)
2:00 – 4:00pmExploris480 and timsTOF tutorial (wet lab) – Dr. Allison Manuel and Dr. Martin Golkowski (U of U)
Day 3Health Science Education Building (Room #4100B)
8:00 – 8:45amProteomics Data Analysis (lecture) – Dr. Allison Manuel (U of U)
8:45 – 9:00amBreak
9:00 – 9:45amStudent Research Presentations (3)
9:45 – 10:00amBreak
10:00 – 11:00amProtein Quantitation using Isobaric Labeling and DIA (lecture) – Dr. Brandon Gassaway (BYU) and Dr. Allison Manuel (U of U)
11:00am – 12:00pmStudent Research Presentations (3)
12:00 – 1:00pmLunch
1:00 – 4:00pmHands-on Data Analysis (DDA, DIA and Perseus)  – Dr. Allison Manuel (U of U)
Day 4Health Science Education Building (Room #3515B)
8:00 – 9:00amProteomics Applications in Pathology Research (lecture) – Dr. Sarah Franklin (U of U)
9:00 – 9:45amStudent Research Presentations (3)
9:45 – 10:00amBreak
10:00 – 10:45amStudent Research Presentations (3)
10:45 – 11:00amBreak
11:00am – 12:00pmR studio (lecture)  –  Dr. Paul Stewart (U of U)
12:00 – 1:00pmLunch
1:00 – 4:00pmStatistical Data Analysis using R studio – Dr. Paul Stewart (U of U)
— Course Evaluation —

Sorry! Registration Full.

Photos will be taken throughout the workshop and posted on our website. Registering for the event implies consent.