ArticleNucleic acids research2006
Genome-wide in silico identification and analysis of cis natural antisense transcripts (cis-NATs) in ten species.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 108 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
108 citing papers in PubMed, 178 citations in OpenAlex.
- Transcriptional interference revisited.Nature genetics · 2026Review
- Natural antisense transcripts as versatile regulators of gene expression.Nature reviews. Genetics · 2024Review
- Genome-wide view and characterization of natural antisense transcripts in Cannabis Sativa L.Plant molecular biology · 2024Article
- Overlaps Between CDS Regions of Protein-Coding Genes in the Human Genome: A Case Study on the NR1D1-THRA Gene Pair.Journal of molecular evolution · 2023Article
- The genomic region of the 3' untranslated region (3'UTR) of PHO84, rather than the antisense RNA, promotes gene repression.Nucleic acids research · 2023Article
- Global identification of natural antisense transcripts iniScience · 2023Article
- European Society of Toxicologic Pathology (Pathology 2.0 Molecular Pathology Special Interest Group): Review of In Situ Hybridization Techniques for Drug Research and Development.Toxicologic pathology · 2023Review
- An antisense intragenic lncRNA SEAIRa mediates transcriptional and epigenetic repression ofProceedings of the National Academy of Sciences of the United States of America · 2023Article
- Editorial: Mechanisms of action of natural antisense transcripts on the post-transcriptional regulation of sense protein coding gene expression during development and in cancer.Frontiers in molecular biosciences · 2023Article
- Comprehensive, integrative genomic analysis of microRNA expression profiles in different tissues of two wheat cultivars with different traits.Functional & integrative genomics · 2022Article
- CCIVR facilitates comprehensive identification of cis-natural antisense transcripts with their structural characteristics and expression profiles.Scientific reports · 2022Article
- Article
- LncRNA TMPO-AS1 promotes esophageal squamous cell carcinoma progression by forming biomolecular condensates with FUS and p300 to regulate TMPO transcription.Experimental & molecular medicine · 2022Article
- Dosage sensitivity and exon shuffling shape the landscape of polymorphic duplicates in Drosophila and humans.Nature ecology & evolution · 2022Article
- Genome-wide identification of antisense lncRNAs and their association with susceptibility toFrontiers in immunology · 2022Article
- Regulation of closely juxtaposed proto-oncogeneRNA (New York, N.Y.) · 2021Article
- Antisense RNAs during early vertebrate development are divided in groups with distinct features.Genome research · 2021Article
- Review
- Genomic determinants for initiation and length of natural antisense transcripts in Entamoeba histolytica.Scientific reports · 2020Article
- Natural antisense transcripts of MIR398 genes suppress microR398 processing and attenuate plant thermotolerance.Nature communications · 2020Article
48 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
We developed a fast, integrative pipeline to identify cis natural antisense transcripts (cis-NATs) at genome scale. The pipeline mapped mRNAs and ESTs in UniGene to genome sequences in GoldenPath to find overlapping transcripts and combining information from coding sequence, poly(A) signal, poly(A) tail and splicing sites to deduce transcription orientation. We identified cis-NATs in 10 eukaryotic species, including 7830 candidate sense-antisense (SA) genes in 3915 SA pairs in human. The abundance of SA genes is remarkably low in worm and does not seem to be caused by the prevalence of operons. Hundreds of SA pairs are conserved across different species, even maintaining the same overlapping patterns. The convergent SA class is prevalent in fly, worm and sea squirt, but not in human or mouse as reported previously. The percentage of SA genes among imprinted genes in human and mouse is 24-47%, a range between the two previous reports. There is significant shortage of SA genes on Chromosome X in human and mouse but not in fly or worm, supporting X-inactivation in mammals as a possible cause. SA genes are over-represented in the catalytic activities and basic metabolism functions. All candidate cis-NATs can be downloaded from http://nats.cbi.pku.edu.cn/download/.
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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.