ArticleMolecular & cellular proteomics : MCP2015
A Double-Barrel Liquid Chromatography-Tandem Mass Spectrometry (LC-MS/MS) System to Quantify 96 Interactomes per Day.
Article in Molecular & cellular proteomics : MCP, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
23 citing papers in PubMed, 51 citations in OpenAlex.
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- Regarding Emitter Positioning for Nanoflow Electrospray Ionization with a High-Capacity Inlet Capillary.Journal of the American Society for Mass Spectrometry · 2026Article
- SynchroSep-MS: Parallel LC Separations for Multiplexed Proteomics.Journal of the American Society for Mass Spectrometry · 2025Article
- Multicolumn Nanoflow Liquid Chromatography with Accelerated Offline Gradient Generation for Robust and Sensitive Single-Cell Proteome Profiling.Analytical chemistry · 2024Article
- High-Throughput Proteomics Enabled by a Fully Automated Dual-Trap and Dual-Column LC-MS.Analytical chemistry · 2024Article
- Triboelectric Nanogenerator-Coated Blade Spray Mass Spectrometry for Volume-Limited Drug Analysis.International journal of mass spectrometry · 2024Article
- Multidimensional Separations in Top-Down Proteomics.Analytical science advances · 2023Article
- Parallelization with Dual-Trap Single-Column Configuration Maximizes Throughput of Proteomic Analysis.Analytical chemistry · 2022Article
- Label-Free Profiling of up to 200 Single-Cell Proteomes per Day Using a Dual-Column Nanoflow Liquid Chromatography Platform.Analytical chemistry · 2022Article
- Label-free visual proteomics: Coupling MS- and EM-based approaches in structural biology.Molecular cell · 2022Review
- Cryo-EM reconstructions of inhibitor-bound SMG1 kinase reveal an autoinhibitory state dependent on SMG8.eLife · 2021Article
- Nse5/6 inhibits the Smc5/6 ATPase and modulates DNA substrate binding.The EMBO journal · 2021Article
- Calcitriol Promotes Differentiation of Glioma Stem-Like Cells and Increases Their Susceptibility to Temozolomide.Cancers · 2021Article
- Miniaturised interaction proteomics on a microfluidic platform with ultra-low input requirements.Nature communications · 2019Article
- Cross-ID: Analysis and Visualization of Complex XL-MS-Driven Protein Interaction Networks.Journal of proteome research · 2019Article
- A Novel LC System Embeds Analytes in Pre-formed Gradients for Rapid, Ultra-robust Proteomics.Molecular & cellular proteomics : MCP · 2018Article
- Glycomics and Proteomics Approaches to Investigate Early Adenovirus-Host Cell Interactions.Journal of molecular biology · 2018Review
- A Comprehensive Guide for Performing Sample Preparation and Top-Down Protein Analysis.Proteomes · 2017Review
- Protein Interactions during the Flavivirus and Hepacivirus Life Cycle.Molecular & cellular proteomics : MCP · 2017Review
- Expanding Proteome Coverage with CHarge Ordered Parallel Ion aNalysis (CHOPIN) Combined with Broad Specificity Proteolysis.Journal of proteome research · 2017Article
Corrections and comments
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The field of proteomics has evolved hand-in-hand with technological advances in LC-MS/MS systems, now enabling the analysis of very deep proteomes in a reasonable time. However, most applications do not deal with full cell or tissue proteomes but rather with restricted subproteomes relevant for the research context at hand or resulting from extensive fractionation. At the same time, investigation of many conditions or perturbations puts a strain on measurement capacity. Here, we develop a high-throughput workflow capable of dealing with large numbers of low or medium complexity samples and specifically aim at the analysis of 96-well plates in a single day (15 min per sample). We combine parallel sample processing with a modified liquid chromatography platform driving two analytical columns in tandem, which are coupled to a quadrupole Orbitrap mass spectrometer (Q Exactive HF). The modified LC platform eliminates idle time between measurements, and the high sequencing speed of the Q Exactive HF reduces required measurement time. We apply the pipeline to the yeast chromatin remodeling landscape and demonstrate quantification of 96 pull-downs of chromatin complexes in about 1 day. This is achieved with only 500 μg input material, enabling yeast cultivation in a 96-well format. Our system retrieved known complex-members and the high throughput allowed probing with many bait proteins. Even alternative complex compositions were detectable in these very short gradients. Thus, sample throughput, sensitivity and LC/MS-MS duty cycle are improved severalfold compared with established workflows. The pipeline can be extended to different types of interaction studies and to other medium complexity proteomes.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.