ArticleGenome research2007
Mapping the C. elegans noncoding transcriptome with a whole-genome tiling microarray.
Article in Genome research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 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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Who cites it
37 citing papers in PubMed.
- Of dogs and hookworms: man's best friend and his parasites as a model for translational biomedical research.Parasites & vectors · 2018Review
- Article
- Analysis of the p53/CEP-1 regulated non-coding transcriptome in C. elegans by an NSR-seq strategy.Protein & cell · 2014Article
- Non-polyadenylated transcription in embryonic stem cells reveals novel non-coding RNA related to pluripotency and differentiation.Nucleic acids research · 2013Article
- A differential sequencing-based analysis of the C. elegans noncoding transcriptome.RNA (New York, N.Y.) · 2012Article
- Article
- Identification of intermediate-size non-coding RNAs involved in the UV-induced DNA damage response in C. elegans.PloS one · 2012Article
- Evolutionary conservation and functional roles of ncRNA.Frontiers in genetics · 2012Article
- Molecular profiling of mitochondrial dysfunction in Caenorhabditis elegans.Methods in molecular biology (Clifton, N.J.) · 2012Article
- Seeing elegance in gene regulatory networks of the worm.Current opinion in genetics & development · 2011Review
- The Caenorhabditis elegans paxillin orthologue, PXL-1, is required for pharyngeal muscle contraction and for viability.Molecular biology of the cell · 2011Article
- The Caenorhabditis elegans intermediate-size transcriptome shows high degree of stage-specific expression.Nucleic acids research · 2011Article
- Article
- TAAPP: Tiling Array Analysis Pipeline for Prokaryotes.Genomics, proteomics & bioinformatics · 2011Article
- Prediction and characterization of noncoding RNAs in C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data.Genome research · 2011Article
- A spatial and temporal map of C. elegans gene expression.Genome research · 2011Article
- Methods and strategies for gene structure curation in WormBase.Database : the journal of biological databases and curation · 2011Article
- Identification of novel non-coding small RNAs from Streptococcus pneumoniae TIGR4 using high-resolution genome tiling arrays.BMC genomics · 2010Article
- Article
- Conserved elements associated with ribosomal genes and their trans-splice acceptor sites in Caenorhabditis elegans.Nucleic acids research · 2010Article
Corrections and comments
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Authors and funding
15 authors.
Funding
Abstract
The number of annotated protein coding genes in the genome of Caenorhabditis elegans is similar to that of other animals, but the extent of its non-protein-coding transcriptome remains unknown. Expression profiling on whole-genome tiling microarrays applied to a mixed-stage C. elegans population verified the expression of 71% of all annotated exons. Only a small fraction (11%) of the polyadenylated transcription is non-annotated and appears to consist of approximately 3200 missed or alternative exons and 7800 small transcripts of unknown function (TUFs). Almost half (44%) of the detected transcriptional output is non-polyadenylated and probably not protein coding, and of this, 70% overlaps the boundaries of protein-coding genes in a complex manner. Specific analysis of small non-polyadenylated transcripts verified 97% of all annotated small ncRNAs and suggested that the transcriptome contains approximately 1200 small (<500 nt) unannotated noncoding loci. After combining overlapping transcripts, we estimate that at least 70% of the total C. elegans genome is transcribed.
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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.