ArticleNature protocols2011
Monitoring protein expression in whole-cell extracts by targeted label- and standard-free LC-MS/MS.
Article in Nature protocols, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
27 citing papers in PubMed, 58 citations in OpenAlex.
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- Semiquantitative analysis of protein expression in heated rat lens using shotgun proteomics.Molecular medicine reports · 2025Article
- Cadmium stress dictates central carbon flux and alters membrane composition in Streptococcus pneumoniae.Communications biology · 2020Article
- Ultra-High-Throughput Clinical Proteomics Reveals Classifiers of COVID-19 Infection.Cell systems · 2020Article
- Alzheimer's disease progression characterized by alterations in the molecular profiles and biogenesis of brain extracellular vesicles.Alzheimer's research & therapy · 2020Article
- Dietary Sugars Alter Hepatic Fatty Acid Oxidation via Transcriptional and Post-translational Modifications of Mitochondrial Proteins.Cell metabolism · 2019Article
- Dark-colored maple syrup treatment induces S-phase cell cycle arrest via reduced proliferating cell nuclear antigen expression in colorectal cancer cells.Oncology letters · 2019Article
- A Proteomic Approach for Understanding the Mechanisms of Delayed Corneal Wound Healing in Diabetic Keratopathy Using Diabetic Model Rat.International journal of molecular sciences · 2018Article
- Application of targeted mass spectrometry in bottom-up proteomics for systems biology research.Journal of proteomics · 2018Review
- Shotgun label-free proteomic analysis for identification of proteins in HaCaT human skin keratinocytes regulated by the administration of collagen from soft-shelled turtle.Journal of biomedical materials research. Part B, Applied biomaterials · 2018Article
- Deciphering Multifactorial Resistance Phenotypes inMolecular & cellular proteomics : MCP · 2018Article
- Proteomic profile of the lens in a streptozotocin-induced diabetic rat model using shotgun proteomics.Biomedical reports · 2017Article
- Multiplexed Liquid Chromatography-Multiple Reaction Monitoring Mass Spectrometry Quantification of Cancer Signaling Proteins.Methods in molecular biology (Clifton, N.J.) · 2017Article
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- Prediction of Hopeless Peptides Unlikely to be Selected for Targeted Proteome Analysis.Mass spectrometry (Tokyo, Japan) · 2017Article
- Identification of aldolase A as a potential diagnostic biomarker for colorectal cancer based on proteomic analysis using formalin-fixed paraffin-embedded tissue.Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine · 2016Article
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- Tpo1-mediated spermine and spermidine export controls cell cycle delay and times antioxidant protein expression during the oxidative stress response.EMBO reports · 2013Article
- The beauty of being (label)-free: sample preparation methods for SWATH-MS and next-generation targeted proteomics.F1000Research · 2013Article
Corrections and comments
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Authors and funding
2 authors at 2 institutions in 2 countries.
Funding
Abstract
Targeted quantification of proteins is a daily task in biological research but often relies on techniques such as western blotting that are only barely quantitative. Here we present a broadly applicable workflow for protein quantification from unpurified whole-cell extracts that can be completed in less than 3 d. Without prefractionation or affinity enrichment, a whole-cell extract is trypsin-digested in an acetonitrile-containing ammonium carbonate buffer and high-molecular-weight compounds are removed by filtration. A normalization strategy, which involves endogenous reference proteins, facilitates the determination of relative changes in protein expression without requiring isotope labeling or standard addition. On a triple-quadrupole mass spectrometer, we demonstrate standard-free quantification of yeast proteins present over five orders of magnitude and present at ≥500 copies per cell. Liquid chromatography/multiple reaction monitoring (LC-MRM)-based proteomics is therefore a next-generation alternative to western blotting, as it allows simultaneous and reliable quantification of multiple endogenous proteins without the need for enrichment, isotope labeling or use of antibodies.
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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.