ArticleScientific reports2016
Complementary Post Transcriptional Regulatory Information is Detected by PUNCH-P and Ribosome Profiling.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 21 citations in OpenAlex.
- Uncovering extensive post-translation regulation during human cell cycle progression by integrative multi-'omics analysis.BMC bioinformatics · 2019Article
- An Evolutionarily Conserved uORF Regulates PGC1α and Oxidative Metabolism in Mice, Flies, and Bluefin Tuna.Cell metabolism · 2019Article
- Translatomics: The Global View of Translation.International journal of molecular sciences · 2019Review
- Comprehensive Cis-Regulation Analysis of Genetic Variants in Human Lymphoblastoid Cell Lines.Frontiers in genetics · 2019Article
- Ribosome elongating footprints denoised by wavelet transform comprehensively characterize dynamic cellular translation events.Nucleic acids research · 2018Article
- BC200 (BCYRN1) - The shortest, long, non-coding RNA associated with cancer.Non-coding RNA research · 2018Review
- Article
- A novel short L-arginine responsive protein-coding gene (laoB) antiparallel overlapping to a CadC-like transcriptional regulator in Escherichia coli O157:H7 Sakai originated by overprinting.BMC evolutionary biology · 2018Article
- GWIPS-viz: 2018 update.Nucleic acids research · 2018Article
- HRPDviewer: human ribosome profiling data viewer.Database : the journal of biological databases and curation · 2018Article
- A Plant Biologist's Toolbox to Study Translation.Frontiers in plant science · 2018Review
- Time-Resolved Proteomics Extends Ribosome Profiling-Based Measurements of Protein Synthesis Dynamics.Cell systems · 2017Article
- Riborex: fast and flexible identification of differential translation from Ribo-seq data.Bioinformatics (Oxford, England) · 2017Article
- Discovery of numerous novel small genes in the intergenic regions of the Escherichia coli O157:H7 Sakai genome.PloS one · 2017Article
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Two novel approaches were recently suggested for genome-wide identification of protein aspects synthesized at a given time. Ribo-Seq is based on sequencing all the ribosome protected mRNA fragments in a cell, while PUNCH-P is based on mass-spectrometric analysis of only newly synthesized proteins. Here we describe the first Ribo-Seq/PUNCH-P comparison via the analysis of mammalian cells during the cell-cycle for detecting relevant differentially expressed genes between G1 and M phase. Our analyses suggest that the two approaches significantly overlap with each other. However, we demonstrate that there are biologically meaningful proteins/genes that can be detected to be post-transcriptionally regulated during the mammalian cell cycle only by each of the approaches, or their consolidation. Such gene sets are enriched with proteins known to be related to intra-cellular signalling pathways such as central cell cycle processes, central gene expression regulation processes, processes related to chromosome segregation, DNA damage, and replication, that are post-transcriptionally regulated during the mammalian cell cycle. Moreover, we show that combining the approaches better predicts steady state changes in protein abundance. The results reported here support the conjecture that for gaining a full post-transcriptional regulation picture one should integrate the two approaches.
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