ArticleGenome research2011
Deep-transcriptome and ribonome sequencing redefines the molecular networks of pluripotency and the extracellular space in human embryonic stem cells.
Article in Genome research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
What it found
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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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Who cites it
13 citing papers in PubMed, 25 citations in OpenAlex.
- Transcriptional Profiling of Stem Cells: Moving from Descriptive to Predictive Paradigms.Stem cell reports · 2019Review
- Cardiomyogenic differentiation is fine-tuned by differential mRNA association with polysomes.BMC genomics · 2019Article
- Polysome profiling followed by RNA-seq of cardiac differentiation stages in hESCs.Scientific data · 2018Article
- New Monoclonal Antibodies to Defined Cell Surface Proteins on Human Pluripotent Stem Cells.Stem cells (Dayton, Ohio) · 2017Article
- Musashi2 sustains the mixed-lineage leukemia-driven stem cell regulatory program.The Journal of clinical investigation · 2015Article
- Gene expression variability as a unifying element of the pluripotency network.Stem cell reports · 2014Article
- Alternative polyadenylation in the nervous system: to what lengths will 3' UTR extensions take us?BioEssays : news and reviews in molecular, cellular and developmental biology · 2014Review
- Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance.Nature genetics · 2014Article
- PUNCH-P for global translatome profiling: Methodology, insights and comparison to other techniques.Translation (Austin, Tex.) · 2013Article
- Role of alternative polyadenylation during adipogenic differentiation: an in silico approach.PloS one · 2013Article
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- Translation regulation gets its 'omics' moment.Wiley interdisciplinary reviews. RNAReview
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
15 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Recent RNA-sequencing studies have shown remarkable complexity in the mammalian transcriptome. The ultimate impact of this complexity on the predicted proteomic output is less well defined. We have undertaken strand-specific RNA sequencing of multiple cellular RNA fractions (>20 Gb) to uncover the transcriptional complexity of human embryonic stem cells (hESCs). We have shown that human embryonic stem (ES) cells display a high degree of transcriptional diversity, with more than half of active genes generating RNAs that differ from conventional gene models. We found evidence that more than 1000 genes express long 5' and/or extended 3'UTRs, which was confirmed by "virtual Northern" analysis. Exhaustive sequencing of the membrane-polysome and cytosolic/untranslated fractions of hESCs was used to identify RNAs encoding peptides destined for secretion and the extracellular space and to demonstrate preferential selection of transcription complexity for translation in vitro. The impact of this newly defined complexity on known gene-centric network models such as the Plurinet and the cell surface signaling machinery in human ES cells revealed a significant expansion of known transcript isoforms at play, many predicting possible alternative functions based on sequence alterations within key functional domains.
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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.