Skip to content Skip to navigation

 

 

 

MASS SPEC: THE NEXT GENERATION

Held on the Zoom holodeck, Wed-Thurs October 28-29

more info

COVID-19 update, June 22, 2020:

SUMS aims to safely support the campus research restart under Stanford's Stage 2 physical distancing rules.  Meetings and seminars continue to be held via Zoom.  Email us at spectrometry@stanford.eduMore info

SUMS Seminar Series
via Zoom on Thursdays

more info 
 

Mass Spec Fundamentals Seminars

Thursday September 3, 2020 - SUMS Seminar Series

Fundamentals: An introduction to MS-based glycoproteomics

Nick Riley, PhD - Dept. of Chemistry, Stanford University
Zoom webinar, noon-1 pm
View recorded webinar
Download .pdf of slides

 

Protein glycosylation is a prevalent, yet heterogeneous co- and post-translational modification (PTM). Glycosylation mediates biophysical and biochemical interactions both intra- and extracellularly, with roles ranging from structural stability, immune regulation, cell proliferation, and intercellular dynamics (to name a few). Similar to other PTMs, e.g., phosphorylation and acetylation, mass spectrometry is the premier method to map site of glycosylation, but challenges inherent to the heterogeneity of glycosylation (in both the glycans that modify proteins and the sites that are modified) make glycoproteomics significantly more difficult. Here we will discuss fundamental mental characteristics of several classes of protein glycosylation, including N-glycosylation and two different types of O-glycosylation (O-GlcNAc vs. mucin-type/O-GalNAc). We will also cover standard workflows used in the field, covering protease considerations, enrichment options, LC-MS/MS methods, and well-established analysis tools. Importantly, we will address shortcomings and challenges that remain in glycoproteomics, too. Glycoproteomics data will be discussed in context with other -omics efforts, e.g., glycomics and standard proteomics, with the ultimate goal that MS researchers unfamiliar with the glyco world will be able to appreciate nuances required in glycosylation analysis.

 

Thursday July 23, 2020 - SUMS Seminar Series

Mass Spec Fundamentals: what you didn’t know you needed to know

Speaker: Ryan Leib, PhD
View recorded webinar
Download .pdf of slides
 

An encore performance of the inaugural seminar of our Fundamentals Series!  In case you missed it in-person, we are streaming and recording this essential presentation.  This seminar will cover the basic foundations of ion generation, manipulation, and detection in a typical LC/MS experiment, and why it matters to your research.  This is a great jumping on point for scientists new to mass spectrometery who are excited to learn a bit about the underlying physical processes that make these experiments possible.

Thursday July 2, 2020 - SUMS Seminar Series

Fundamentals: Bioanalytical LC/MS method validation -- fit for purpose

Ludmila Alexandrova, PhD
Zoom webinar, noon-1 pm
View recorded webinar
Download .pdf of slides

 

With the increasing importance of research reproducibility and requirements of peer-reviewed scientific journals, the reliability of bioanalytical data and the value of method validation cannot be underestimated.  Unreliable results are subject to misinterpretation and can lead to project failure.  At the same time, extensive method validation is a complicated and time-consuming process and is not to be undertaken lightly.  This seminar will provide an overview of validation guidelines, requirements, approaches, workflow, and data analysis.  Case studies will illustrate the fit-for-purpose concept -- suiting the level of validation to the intended purpose of the study.  Please bring your questions and suggestions.

Thursday May 21, 2020 - SUMS Seminar Series

Fundamentals: Applications of LC/MS in small molecule drug discovery

Liquid chromatography-mass spectrometry (LC/MS) is a proven technique of choice for many assays implemented during the various stages of drug discovery and development. Join us for an overview of LC/MS applications in the drug discovery process with emphasis on metabolism and pharmacokinetic studies. We will share real-world project examples with focus on selection of suitable LC/MS instrumentation, method development approaches, sample preparation, data analysis and interpretation.

Ludmila Alexandrova, PhD
Zoom webinar, noon-1 pm
View recorded webinar
Download .pdf of slides

Thursday May 7, 2020 - SUMS Seminar Series

Fundamentals: Native mass spectrometry & relevant techniques

Beryl Xia, PhD
Zoom webinar, noon-1 pm
View recorded webinar
Download .pdf of slides

 

Interested in using mass spectrometry as a tool for structural biology? Curious about emerging  approaches for protein research? This seminar will provide a broad overview of native mass spectrometry and its applications, and touch on both popular and non-commercial emerging techniques relevant to native mass spectrometry. Topics include charge detection mass spectrometry (CDMS), ion mobility spectrometry (IMS), hydrogen-deuterium exchange (HDX), and more.

Thursday April 30, 2020 - SUMS Seminar Series

Fundamentals: Peptide quantitation strategies

Fang Liu, PhD; Beryl Xia, PhD
Zoom webinar, noon-1 pm
View recorded webinar
Download .pdf of slides

 

A deeper dive into quantitation techniques specifically for peptides, including selected reaction monitoring (SRM), parallel reaction monitoring (PRM), TOMAHAQ, SureQuant, and more.

Thursday April 23, 2020 - SUMS Seminar Series

Fundamentals: Measuring concentrations of small molecules using mass spectrometry - theory and practice, part II

Karolina Krasinska, MS
Zoom webinar, noon-1 pm
View recorded webinar
Download .pdf of slides


Part II, with emphasis on the practice: How can I measure concentrations of specific molecules in my sample? What are the possible approaches and how do I determine which one is best for my application?  What do I need to consider when planning such a project? This seminar will answer these questions and more, explaining mass spectrometry-based targeted quantitation from the ground up.  Learn about common pitfalls and strategies to navigate around them. Gain practical tips on data analysis and what your data can and can’t tell you. Bring your questions, learn from your fellow researchers’ questions, and come away with a solid grounding in this core analytical technique.

Thursday April 16, 2020 - SUMS Seminar Series

Fundamentals: New proteomic approaches and essential data handling tips

Kratika Singhal, MS; Rowan Matney, BA
Zoom webinar, noon-1 pm
View recorded webinar
Download .pdf of slides

 

Get the inside scoop on both ends of proteomic workflows: from sample prep approaches for experiments like TMTPro-16plex, phosphoproteomics and SureQuant, to what to do with your data once the results are in.

Thursday April 9, 2020 - SUMS Seminar Series

Fundamentals: Intact protein mass spectrometry - tips and best practices

Theresa McLaughlin, MS
Zoom webinar, noon-1 pm
View recorded webinar

Download .pdf of slides

Mass spectrometry is a powerful tool for analyzing intact proteins.  This seminar will focus on recommendations and practical considerations for success.  Which instruments should you use? How much sample is required? What buffer components can be tolerated?  Which modifications can be detected? How is the data analyzed? We will answer these questions and cover details of the ESI-LC/MS methods used at SUMS for intact protein MW determination.

Thursday April 2, 2020 - SUMS Seminar Series

Fundamentals: Measuring concentrations of small molecules using mass spectrometry - theory and practice, Part I

Karolina Krasinska, MS
Zoom webinar, noon-1 pm
View recorded webinar

Download .pdf of slides

How can I measure concentrations of specific molecules in my sample? Can I use a mass spectrometer to analyze my samples of interest?  What mass spectrometers are best suited for this purpose? What are the possible approaches and how do I determine which one is best for my application?  What do I need to consider when planning such a project? This seminar will answer these questions and more, explaining mass spectrometry-based targeted quantitation from the ground up.  Learn about common pitfalls and strategies to navigate around them. Gain practical tips on data analysis and what your data can and can’t tell you. Bring your questions, learn from your fellow researchers’ questions, and come away with a solid grounding in this core analytical technique.

Thursday March 26, 2020 - SUMS Seminar Series

Fundamentals: Quantitation strategies in mass spectrometry-based proteomics

Fang Liu, PhD
Zoom webinar, noon-1 pm
View recorded webinar
Download .pdf of slides

This seminar will cover the most commonly used methods for mass spectrometry‐based quantification in proteomic applications. Quantification can be performed using either unlabeled or labeled approaches. Advantages and disadvantages, including quantification accuracy and reproducibility, will be discussed for each type of approach. This is a great opportunity for scientists who are new to mass spectrometry to learn about options available in qualitative and quantitative proteomics, and which method to choose for their research applications.

Sponsor: PharmaFluidics