University of Rochester Medical Center
Kevin Welle, Technical Director
601 Elmwood Avenue
Rochester, NY 14642
https://www.urmc.rochester.edu/research/mass-spectrometry.aspx
RRID: RRID:SCR_023106
Thermo Q Exactive Plus Hybrid Quadrupole-Orbitrap Mass Spectrometer
Q Exactive Plus Hybrid Quadrupole-Orbitrap Mass Spectrometer has increased performance and new options that enhance applications from confident DMPK qual/quan screening studies to characterization of intact monoclonal antibodies. [Product Link]
RRID:SCR_020556
Citation IDs: S10OD021486
Thermo Scientific Orbitrap Fusion Lumos Tribrid Mass Spectrometer
Spectrometer performs analysis including low level PTM analysis, multiplexed relative quantitation using isobaric tags, intact protein characterization, and MSn analysis of small molecules. System incorporates the brightest ion source, segmented quadrupole mass filter with improved selectivity and ion transmission, Advanced Vacuum Technology, and ETD HD. [Product Link]
RRID:SCR_020562
Citation IDs: S10OD025242
Consultation
Consultations
Data Analysis
Data Analysis And Interpretation
Data Processing
Data Processing And Interpretation
HPLC
HRAM Mass Spectrometry
Label Free Quantitative Proteomics
Labeled Quantitative Proteomics -TMT And Other Labeling
Mass Spectrometry
Mass Spectrometry - Proteins And Peptides
Mass Spectrometry - Small Molecules
Nano-LC-MS -complex Mixtures
Phosphoproteomics
Proteomics
Proteomics Analysis
Quantitative Proteomics - TMT
Sample Preparation
SDS-PAGE
TMT-Quantitation
Training
Untargeted Mass Spectrometry
1.) Lin MH, Jensen MK, Elrod ND, Huang KL, Welle KA, Wagner EJ, Tong L (2022 Sep 30). Inositol hexakisphosphate is required for Integrator function. Nature communications, 13(1), 5742. . ID: 36180473.
2.) Benraiss A, Mariani JN, Tate A, Madsen PM, Clark KM, Welle KA, Solly R, Capellano L, Bentley K, Chandler-Militello D, Goldman SA (2022 Aug 30). A TCF7L2-responsive suppression of both homeostatic and compensatory remyelination in Huntington disease mice. Cell reports, 40(9), 111291. doi: 10.1016/j.celrep.2022.111291. ID: 36044851.
3.) Sobolewski M, Conrad K, Marvin E, Eckard M, Goeke CM, Merrill AK, Welle K, Jackson BP, Gelein R, Chalupa D, Oberdörster G, Cory-Slechta DA (2022 Aug 9). The potential involvement of inhaled iron (Fe) in the neurotoxic effects of ultrafine particulate matter air pollution exposure on brain development in mice. Particle and fibre toxicology, 19(1), 56. . ID: 35945578.
4.) Bettinger JQ, Simon M, Korotkov A, Welle KA, Hryhorenko JR, Seluanov A, Gorbunova V, Ghaemmaghami S (2022 Jun 3). Accurate Proteomewide Measurement of Methionine Oxidation in Aging Mouse Brains. Journal of proteome research, 21(6), 1495-1509. . ID: 35584362.
5.) Walker EJ, Bettinger JQ, Welle KA, Hryhorenko JR, Molina Vargas AM, O (2022 May). Protein folding stabilities are a major determinant of oxidation rates for buried methionine residues. The Journal of biological chemistry, 298(5), 101872. . ID: 35346688.
6.) Alwaseem H, Giovani S, Crotti M, Welle K, Jordan CT, Ghaemmaghami S, Fasan R (2021 May 26). Comprehensive Structure-Activity Profiling of Micheliolide and its Targeted Proteome in Leukemia Cells via Probe-Guided Late-Stage C-H Functionalization. ACS central science, 7(5), 841-857. . ID: 34079900.
7.) Fields AM, Welle K, Ho ES, Mesaros C, Susiarjo M (2021 Mar 26). Vitamin B6 deficiency disrupts serotonin signaling in pancreatic islets and induces gestational diabetes in mice. Communications biology, 4(1), 421. . ID: 33772108.
8.) Anderson T, Merrill AK, Eckard ML, Marvin E, Conrad K, Welle K, Oberdörster G, Sobolewski M, Cory-Slechta DA (2021 Feb 26). Paraquat Inhalation, a Translationally Relevant Route of Exposure: Disposition to the Brain and Male-Specific Olfactory Impairment in Mice. Toxicological sciences : an official journal of the Society of Toxicology, 180(1), 175-185. . ID: 33372994.
9.) Wu J, Venkata Subbaiah KC, Jiang F, Hedaya O, Mohan A, Yang T, Welle K, Ghaemmaghami S, Tang WHW, Small E, Yan C, Yao P (2021 Feb 5). MicroRNA-574 regulates FAM210A expression and influences pathological cardiac remodeling. EMBO molecular medicine, 13(2), e12710. . ID: 33369227.
10.) Swovick K, Firsanov D, Welle KA, Hryhorenko JR, Wise JP Sr, George C, Sformo TL, Seluanov A, Gorbunova V, Ghaemmaghami S (2021). Interspecies Differences in Proteome Turnover Kinetics Are Correlated With Life Spans and Energetic Demands. Molecular & cellular proteomics : MCP, 20(), 100041. . ID: 33639418.
11.) Hutti CR, Welle KA, Hryhorenko JR, Ghaemmaghami S (2020 Jul 28). Publisher Correction: Global analysis of protein degradation in prion infected cells. Scientific reports, 10(1), 12952. . ID: 32719387.
12.) Hutti CR, Welle KA, Hryhorenko JR, Ghaemmaghami S (2020 Jul 1). Global analysis of protein degradation in prion infected cells. Scientific reports, 10(1), 10800. . ID: 32612191.
13.) Bettinger JQ, Welle KA, Hryhorenko JR, Ghaemmaghami S (2020 Feb 7). Quantitative Analysis of in Vivo Methionine Oxidation of the Human Proteome. Journal of proteome research, 19(2), 624-633. . ID: 31801345.
14.) Walker EJ, Bettinger JQ, Welle KA, Hryhorenko JR, Ghaemmaghami S (2019 Mar 26). Global analysis of methionine oxidation provides a census of folding stabilities for the human proteome. Proceedings of the National Academy of Sciences of the United States of America, 116(13), 6081-6090. . ID: 30846556.
15.) Swovick K, Welle KA, Hryhorenko JR, Seluanov A, Gorbunova V, Ghaemmaghami S (2018 Apr). Cross-species Comparison of Proteome Turnover Kinetics. Molecular & cellular proteomics : MCP, 17(4), 580-591. . ID: 29321186.
16.) Popa-Wagner A, Sandu RE, Cristin C, Uzoni A, Welle KA, Hryhorenko JR, Ghaemmaghami S (2018). Increased Degradation Rates in the Components of the Mitochondrial Oxidative Phosphorylation Chain in the Cerebellum of Old Mice. Frontiers in aging neuroscience, 10(), 32. . ID: 29503614.
17.) Zhang T, Wolfe C, Pierle A, Welle KA, Hryhorenko JR, Ghaemmaghami S (2017 Nov 28). Proteome-wide modulation of degradation dynamics in response to growth arrest. Proceedings of the National Academy of Sciences of the United States of America, 114(48), E10329-E10338. . ID: 29133406.
18.) Nadtochiy SM, Wang YT, Zhang J, Nehrke K, Schafer X, Welle K, Ghaemmaghami S, Munger J, Brookes PS (2017 Aug 10). Potential mechanisms linking SIRT activity and hypoxic 2-hydroxyglutarate generation: no role for direct enzyme (de)acetylation. The Biochemical journal, 474(16), 2829-2839. . ID: 28673962.
19.) Welle KA, Zhang T, Hryhorenko JR, Shen S, Qu J, Ghaemmaghami S (2016 Dec). Time-resolved Analysis of Proteome Dynamics by Tandem Mass Tags and Stable Isotope Labeling in Cell Culture (TMT-SILAC) Hyperplexing. Molecular & cellular proteomics : MCP, 15(12), 3551-3563. . ID: 27765818.
20.) Morris-Schaffer K, Sobolewski M, Welle K, Conrad K, Yee M, O (2018 Nov-Dec). Cognitive flexibility deficits in male mice exposed to neonatal hyperoxia followed by concentrated ambient ultrafine particles. Neurotoxicology and teratology, 70(), 51-59. . ID: 30316930.
The Mass Spectrometry Resource Laboratory (MSRL) provides instrumentation and technical expertise to local researchers seeking to conduct MS-based protein or small molecule assays.
Staff within the MSRL provide assistance with project design, sample preparation, collection and interpretation of mass spectrometric data.
Common analyses include the identification of unknown proteins, characterization of protein complexes, mapping of post-translational modifications (PTMs) and quantitation of peptides and small molecules from a range of sample types, including complex clinical matrices, tissue extracts and cell lysates.
Specialized MS instrumentation operated and maintained by the core include a Thermo Orbitrap Astral, a timsTOF Ultra, and a Thermo Q Exactive Plus Hybrid Quadrupole-Orbitrap. In addition, the laboratory has access to a variety of automated database searching software including Proteome Discoverer and DIA-NN.
