ArticlePloS one2012
Evidence for transcript networks composed of chimeric RNAs in human cells.
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 43 papers.
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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
43 citing papers in PubMed.
- RACE-Nano-Seq: Profiling Transcriptome Diversity of a Genomic Locus.Bio-protocol · 2025Article
- A novel human protein-coding locus identified using a targeted RNA enrichment technique.BMC biology · 2024Article
- Evidence for widespread existence of functional novel and non-canonical human transcripts.BMC biology · 2023Article
- Epigenetic factors in breast cancer therapy.Frontiers in genetics · 2022Review
- Computational analysis of sense-antisense chimeric transcripts reveals their potential regulatory features and the landscape of expression in human cells.NAR genomics and bioinformatics · 2021Article
- Emerging Role of Chimeric RNAs in Cell Plasticity and Adaptive Evolution of Cancer Cells.Cancers · 2021Review
- ChiTaRS 5.0: the comprehensive database of chimeric transcripts matched with druggable fusions and 3D chromatin maps.Nucleic acids research · 2020Article
- Comment on "A comprehensive overview and evaluation of circular RNA detection tools".PLoS computational biology · 2019Article
- NCLcomparator: systematically post-screening non-co-linear transcripts (circular, trans-spliced, or fusion RNAs) identified from various detectors.BMC bioinformatics · 2019Article
- Integrative transcriptome sequencing reveals extensive alternative trans-splicing and cis-backsplicing in human cells.Nucleic acids research · 2018Article
- Review
- Mechanisms regulating dendritic arbor patterning.Cellular and molecular life sciences : CMLS · 2017Review
- ChiTaRS-3.1-the enhanced chimeric transcripts and RNA-seq database matched with protein-protein interactions.Nucleic acids research · 2017Article
- ChimPipe: accurate detection of fusion genes and transcription-induced chimeras from RNA-seq data.BMC genomics · 2017Article
- New chimeric RNAs in acute myeloid leukemia.F1000Research · 2017Article
- Discovering and understanding oncogenic gene fusions through data intensive computational approaches.Nucleic acids research · 2016Review
- Read-through transcripts in normal human lung parenchyma are down-regulated in lung adenocarcinoma.Oncotarget · 2016Article
- Fusion transcript loci share many genomic features with non-fusion loci.BMC genomics · 2015Article
- Novel RNA variants in colorectal cancers.Oncotarget · 2015Article
- The Landscape of long noncoding RNA classification.Trends in genetics : TIG · 2015Review
Corrections and comments
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Authors and funding
38 authors.
Funding
Abstract
The classic organization of a gene structure has followed the Jacob and Monod bacterial gene model proposed more than 50 years ago. Since then, empirical determinations of the complexity of the transcriptomes found in yeast to human has blurred the definition and physical boundaries of genes. Using multiple analysis approaches we have characterized individual gene boundaries mapping on human chromosomes 21 and 22. Analyses of the locations of the 5' and 3' transcriptional termini of 492 protein coding genes revealed that for 85% of these genes the boundaries extend beyond the current annotated termini, most often connecting with exons of transcripts from other well annotated genes. The biological and evolutionary importance of these chimeric transcripts is underscored by (1) the non-random interconnections of genes involved, (2) the greater phylogenetic depth of the genes involved in many chimeric interactions, (3) the coordination of the expression of connected genes and (4) the close in vivo and three dimensional proximity of the genomic regions being transcribed and contributing to parts of the chimeric RNAs. The non-random nature of the connection of the genes involved suggest that chimeric transcripts should not be studied in isolation, but together, as an RNA network.
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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.