Selected reaction monitoring for quantitative proteomics: a tutorial by Vinzenz Lange, Paola Picotti, Bruno Domon, Ruedi Aebersold

“…Abstract Systems biology relies on data sets in which the same group of proteins is consistently identified and precisely quantified across multiple samples, a requirement that is only partially achieved by current proteomics approaches. Selected reaction monitoring (SRM)—also called multiple reaction monitoring—is emerging as a technology that ideally complements the discovery capabilities of shotgun strategies by its unique potential for reliable quantification of analytes of low abundance in complex mixtures. …”
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Plasma preparation to measure FDA‐approved protein markers by selected reaction monitoring by Olga I. Kiseleva, Yulia A. Romashova, Natalia E. Moskaleva, Natalia A. Petushkova, Nadezhda B. Teryaeva, Artem Yu. Belyaev, Andrey V. Lisitsa

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An Automated, Highly Selective Reaction Monitoring Instrument Using Molecular Rotational Resonance Spectroscopy by Ann Adele Byars, Khushi R. Kompally, Emily Mechnick, Reilly E. Sonstrom, Alexander Mikhonin, Justin L. Neill, Ruth Boetzel, James MacGregor, Courtney Talicska, Jian Li, Yizhou Liu

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The application of selective reaction monitoring confirms dysregulation of glycolysis in a preclinical model of schizophrenia by Martins-De-Souza, D, Alsaif, M, Ernst, A, Harris, L, Aerts, N, Lenaerts, I, Peeters, P, Amess, B, Rahmoune, H, Bahn, S, Guest, P

“…Therefore, there is a necessity of characterizing the preclinical models from a molecular point of view. Selective reaction monitoring (SRM) has already shown promise in preclinical and clinical studies for multiplex measurement of diagnostic, prognostic and treatment-related biomarkers.…”

Development of Mass Spectrometry Selected Reaction Monitoring Method for Quantitation and Pharmacokinetic Study of Stepharine in Rabbit Plasma by Arthur T. Kopylov, Ksenia G. Kuznetsova, Olga M. Mikhailova, Andrey G. Moshkin, Vladimir V. Turkin, Andrei A. Alimov

“…Specific ion transitions of stepharine protonated precursor ion were selected and recorded in the certain retention time employing dynamic selected reaction monitoring mode. The developed method facilitated quantitative measurements of stepharine in plasma samples in linear range of five orders of magnitude with high accuracy and low standard deviation coefficient and pharmacokinetics parameters were calculated. …”
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Regulation of yeast central metabolism by enzyme phosphorylation by Ana Paula Oliveira, Christina Ludwig, Paola Picotti, Maria Kogadeeva, Ruedi Aebersold, Uwe Sauer

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Selected Reaction Monitoring (SRM) Analysis of Epidermal Growth Factor Receptor (EGFR) in Formalin Fixed Tumor Tissue by Hembrough Todd, Thyparambil Sheeno, Liao Wei-Li, Darfler Marlene M, Abdo Joseph, Bengali Kathleen M, Taylor Paul, Tong Jiefei, Lara-Guerra Humberto, Waddell Thomas K, Moran Michael F, Tsao Ming-Sound, Krizman David B, Burrows Jon

“…</p> <p>Methods</p> <p>A mass spectrometry-based Selected Reaction Monitoring (SRM) assay for the EGFR protein (EGFR-SRM) was developed utilizing the Liquid Tissue®-SRM technology platform. …”
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ATAQS: A computational software tool for high throughput transition optimization and validation for selected reaction monitoring mass spectrometry by Ramos Hector, Kusebauch Ulrike, Picotti Paola, Reiter Lukas, Campbell David, Christiansen Mark, Kwok Sung-Tat, Brusniak Mi-Youn K, Deutsch Eric W, Chen Jingchun, Moritz Robert L, Aebersold Ruedi

“…Increasingly, proteomic measurements are also supporting hypothesis-driven studies, in which a predetermined set of proteins is consistently detected and quantified in multiple samples. Selected reaction monitoring (SRM) is a targeted mass spectrometric technique that supports the detection and quantification of specific proteins in complex samples at high sensitivity and reproducibility. …”
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Mass Spectrometric-Based Selected Reaction Monitoring of Protein Phosphorylation during Symbiotic Signaling in the Model Legume, Medicago truncatula. by Lori K Van Ness, Dhileepkumar Jayaraman, Junko Maeda, Gregory A Barrett-Wilt, Michael R Sussman, Jean-Michel Ané

“…To monitor the phosphorylation dynamics and complement our previous untargeted 'discovery' approach, we report here the results of experiments using a targeted mass spectrometric technique, Selected Reaction Monitoring (SRM) that enables the quantification of phosphorylation targets with great sensitivity and precision. …”
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Targeted proteomics reveals compositional dynamics of 60S pre‐ribosomes after nuclear export by Martin Altvater, Yiming Chang, Andre Melnik, Laura Occhipinti, Sabina Schütz, Ute Rothenbusch, Paola Picotti, Vikram Govind Panse

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High throughput LC/ESI-MS/MS method for simultaneous analysis of 20 oral molecular-targeted anticancer drugs and the active metabolite of sunitinib in human plasma by Tensei Hirasawa, Masafumi Kikuchi, Shinya Takasaki, Masaki Kumondai, Yu Sato, Toshihiro Sato, Eishi Imoto, Yoshihiro Hayakawa, Masamitsu Maekawa, Nariyasu Mano

Subjects: “…Secondary product ion selected reaction monitoring…”
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Quantitative assay of targeted proteome in tomato trichome glandular cells using a large-scale selected reaction monitoring strategy by Ayako Takemori, Taiken Nakashima, Hisashi Ômura, Yuki Tanaka, Keisuke Nakata, Hiroshi Nonami, Nobuaki Takemori

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Changes in Feed Proanthocyanidin Profiles during Silage Production and Digestion by Lamb by Marion Girard, Annika Lehtimäki, Giuseppe Bee, Frigga Dohme-Meier, Maarit Karonen, Juha-Pekka Salminen

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Alterations in Whey Protein Abundance Correlated with the Somatic Cell Count Identified via Label-Free and Selected Reaction Monitoring Proteomic Approaches by Jing Li, Kaixu Chen, Changjiang Zang, Xiaowei Zhao, Zhiqiang Cheng, Xiaobin Li, Caidie Wang, Yong Chen, Kailun Yang

“…Subsequently, whey proteins were identified using a label-free proteomics approach, and the differential abundance of proteins was validated through a selected reaction monitoring (SRM) method. The levels of various proteins, including azurocidin 1 and kininogen-2, exhibited an increase, whereas topoisomerase I, tropomyosin-1, and desmin showed a significant decrease depending on the SCCs. …”
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Extending the Proteomic Characterization of Candida albicans Exposed to Stress and Apoptotic Inducers through Data-Independent Acquisition Mass Spectrometry by Ahinara Amador-García, Inés Zapico, Ana Borrajo, Johan Malmström, Lucía Monteoliva, Concha Gil

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Mass Spectrometry-based Approaches to Understand the Molecular Basis of Memory by Arthur Henriques Pontes, Marcelo Valle de Sousa

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Evaluation of Aptamers as Affinity Reagents for an Enhancement of SRM-Based Detection of Low-Abundance Proteins in Blood Plasma by Sergey Radko, Konstantin Ptitsyn, Svetlana Novikova, Yana Kiseleva, Alexander Moysa, Leonid Kurbatov, Maria Mannanova, Victor Zgoda, Elena Ponomarenko, Andrey Lisitsa, Alexander Archakov

Subjects: “…selected reaction monitoring…”
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The Emerging Potential of Advanced Targeted Mass Spectrometry to Become a Routine Tool for Protein Quantification in Biomedical Research by Alexander Schmidt, Minia Antelo Varela

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Current Trends in Proteomic Advances for Food Allergen Analysis by María López-Pedrouso, José M. Lorenzo, Mohammed Gagaoua, Daniel Franco

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Time-dependent selected reaction monitoring-based GC-MS/MS method for estimation of genotoxic impurities in new antibacterial agent: alalevonadifloxacin mesylate by Vinod K. Ahirrao, Rajiv A. Jadhav, Vipul P. Rane, Harshal R. Bhamare, Ravindra D. Yeole

“…Automatic selective reaction monitoring (auto-SRM) tool was applied to identify the most intense SRM pair of the ions to achieve the highest sensitivity. …”
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