ArticlePloS one2012
Dynamic proteomics of human protein level and localization across the cell cycle.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- BDDN: bayesian dynamic differential network analysis in cancer proteomics.BMC bioinformatics · 2026Article
- Article
- Quantitative Aspects of the Human Cell Proteome.International journal of molecular sciences · 2023Review
- Cell Cycle Regulation of the Pdx1 Transcription Factor in Developing Pancreas and Insulin-Producing β-Cells.Diabetes · 2021Article
- Probing pluripotency gene regulatory networks with quantitative live cell imaging.Computational and structural biotechnology journal · 2020Review
- Multi-parametric characterization of drug effects on cells.F1000Research · 2020Article
- Using time-lapse fluorescence microscopy to study gene regulation.Methods (San Diego, Calif.) · 2019Review
- Dynamic proteomics reveals bimodal protein dynamics of cancer cells in response to HSP90 inhibitor.BMC systems biology · 2017Article
- UNcleProt (Universal Nuclear Protein database of barley): The first nuclear protein database that distinguishes proteins from different phases of the cell cycle.Nucleus (Austin, Tex.) · 2017Article
- JMJD5 (Jumonji Domain-containing 5) Associates with Spindle Microtubules and Is Required for Proper Mitosis.The Journal of biological chemistry · 2016Article
- An Unsupervised kNN Method to Systematically Detect Changes in Protein Localization in High-Throughput Microscopy Images.PloS one · 2016Article
- Trajectories of cell-cycle progression from fixed cell populations.Nature methods · 2015Article
- Review
- Assemblages: functional units formed by cellular phase separation.The Journal of cell biology · 2014Review
- Noise genetics: inferring protein function by correlating phenotype with protein levels and localization in individual human cells.PLoS genetics · 2014Article
- Unsupervised clustering of subcellular protein expression patterns in high-throughput microscopy images reveals protein complexes and functional relationships between proteins.PLoS computational biology · 2013Article
Corrections and comments
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Regulation of proteins across the cell cycle is a basic process in cell biology. It has been difficult to study this globally in human cells due to lack of methods to accurately follow protein levels and localizations over time. Estimates based on global mRNA measurements suggest that only a few percent of human genes have cell-cycle dependent mRNA levels. Here, we used dynamic proteomics to study the cell-cycle dependence of proteins. We used 495 clones of a human cell line, each with a different protein tagged fluorescently at its endogenous locus. Protein level and localization was quantified in individual cells over 24h of growth using time-lapse microscopy. Instead of standard chemical or mechanical methods for cell synchronization, we employed in-silico synchronization to place protein levels and localization on a time axis between two cell divisions. This non-perturbative synchronization approach, together with the high accuracy of the measurements, allowed a sensitive assay of cell-cycle dependence. We further developed a computational approach that uses texture features to evaluate changes in protein localizations. We find that 40% of the proteins showed cell cycle dependence, of which 11% showed changes in protein level and 35% in localization. This suggests that a broader range of cell-cycle dependent proteins exists in human cells than was previously appreciated. Most of the cell-cycle dependent proteins exhibit changes in cellular localization. Such changes can be a useful tool in the regulation of the cell-cycle being fast and efficient.
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