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Knowledge Base Articles

A robust mass spectrometer for precision medicine – the Orbitrap Exploris 240 mass spectrometer for large-scale plasma protein profiling

Michelle L Dubuke1 , Sitara Chauhan1 , Sarah Trusiak1 , and Emily I. Chen1APPLICATION NOTE 65952To demonstrate the reliability and robustness of the Thermo Scientific™ Orbitrap Exploris™ 240 mass spectrometer for large-scale, untargeted plasma protei...

Identifying proteins bound to native mitotic ESC chromosomes reveals chromatin repressors are important for compaction

Dounia Djeghloul, Bhavik Patel, Holger Kramer, Andrew Dimond, Chad Whilding, Karen Brown, Anne-Céline Kohler, Amelie Feytout, Nicolas Veland, James Elliott, Tanmay A. M. Bharat, Abul K. Tarafder, Jan Löwe, Bee L. Ng, Ya Guo, Jacky Guy, Miles K. Husey...

Deep Proteome Coverage and Label-Free Proteomic Analysis of Low Numbers of Mammalian Cells with a Quadrupole-Ion trap-Orbitrap Mass Spectrometer

Min Huang, Xiujie Sun, and Yue ZhouASMS 2020Purpose: To improve the proteome coverage and label-free quantitation performance of limited number of mammalian cells. Methods: Different sample preparation methods and LC-MS parameters were compared for p...

Standardized and scalable plasma protein quantitative profiling workflow using human blood based on a Thermo Scientific Q exactive platform

Jing Wang1; Sarah Trusiak1; Ryan D. Bomgarden2; Sergei Snovida2; Michelle Dubuke1, Emily I. Chen1APLICATION NOTE No. 73194To develop a high throughput plasma and serum proteomics analysis workflow for large population cohort studies that utilizes a s...

Standardized and scalable plasma protein quantitative profiling workflow using human blood based on a Thermo Scientific Q exactive platform

Jing Wang1; Sarah Trusiak1; Ryan D. Bomgarden2; Sergei Snovida2; Michelle Dubuke1, Emily I. Chen1APLICATION NOTE No. 73194To develop a high throughput plasma and serum proteomics analysis workflow for large population cohort studies that utilizes a s...

Ultra-sensitive LC/MS workflow for in-depth label-free analysis of single mammalian cells with nanodroplet sample processing

Khatereh Motamedchaboki1, Yongzheng Cong2, Yiran Liang2, Romain Huguet1, Yufeng Shen3, Xuefei Sun1, Greg Foster1, Daniel Lopez-Ferrer1, Andreas F. Huhmer1, Ying Zhu4 and Ryan T. Kelly2,4Hupo 2019In the last decade, single cell RNA sequencing has adva...

Powerful, standardized and versatile low-flow LCMS platform for deep dive proteomics and high-throughput analysis with maximum MS utilization

Oleksandr Boychenko1, Christopher Pynn1, Mike Baynham2, Jenny Ho3, Tabiwang Arrey4, and Peter Jehle1Hupo 2019Purpose: The availability and ease of sampling of blood and its constituents make it ideal for large cohort clinical research studies. Protei...

Standardized and scalable plasma protein quantitative profiling workflow using human blood based on a Thermo Scientific Q exactive platform

Jing Wang1; Sarah Trusiak1; Ryan D. Bomgarden2; Sergei Snovida2; Michelle Dubuke1, Emily I. Chen1APLICATION NOTE No. 73194To develop a high throughput plasma and serum proteomics analysis workflow for large population cohort studies that utilizes a s...

A Highly Sensitive FFPE Tissue Workflow by Coupling the Micro Pillar Array Column) with High Resolution Mass Spectrometry

Sarah Trusiak1, Antonius Koller2, Alexander R. Ivanov2,3, Emily I. Chen1ASMS 2019 PosterPurpose: This workflow enables comprehensive proteomics analysis of large-scale patient samples with limited starting material. Methods: 50cm PharmaFluidics µPACT...

Optimizing the Isolation Width in Orbitrap Instruments to Maximize the Number of Label-Free Quantified Peptides and Proteins

Carmen Paschke1; David Horn2; Tabiwang N. Arrey1; Rosa Rakownikow Jersie-Christensen1; Martin Zeller1; Romain Huguet2; Pedro Navarro1, Bernard Delanghe1ASMS 2019 PosterPurpose: Maximizing the number of quantified proteins in Label Free Quantification...

Advancing Mass Spectrometry-Based Large-Cohort Proteomics for Precision Medicine – An International Cancer Moonshot Multi-Site Study

Yue Xuan1, 2, N.W. Bateman3 , S.Gallien2,14, Y. Zhou15, N. Parikh3 , M. Hu15, P. Navarro1 , Y. Chen4 , A. Sickmann5 , B. Wollscheid6 , C.R. Jimenez7 , M.R. Larsen8 , H. Zhou9 , S. Liu10 , Z. Chen11 , T. Kislinger 12 , B. Crossett 13 , B. Hood3 , R. B...

Optimized DDA+ and HR-DIA workflows for standardized, reproducible, precise and robust label-free quantitation of proteomes

Aaron S. Gajadhar1, Oleksandr Boychenko2, Xin Zhang3, Yue Xuan4, and Andreas HuhmerASMS 2018Purpose: To overcome the limitations of current label-free proteome quantitation (LFQ) protocols, we sought to develop an end-to-end, complete LFQ workflow so...

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