ArticleBMC genomics2017
Normalized long read RNA sequencing in chicken reveals transcriptome complexity similar to human.
Article in BMC genomics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 75 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
75 citing papers in PubMed, 148 citations in OpenAlex.
- Advances in Poultry RNA-Omics Research: Technologies, RNA Information Layers, and Applications in Complex Traits.Animals : an open access journal from MDPI · 2026Review
- Full-length transcriptome atlas of porcine skeletal muscle reveals isoform-resolved genetic regulatory mechanisms for muscle growth.BMC genomics · 2026Article
- Sex-biased transcriptome in in vitro produced bovine early embryos.Cell & bioscience · 2025Article
- Genetic regulation of gene expression across multiple tissues in chickens.Nature genetics · 2025Article
- Article
- Full-length RNA transcript sequencing traces brain isoform diversity in house mouse natural populations.Genome research · 2024Article
- The Complex Landscape of Structural Divergence Between the Drosophila pseudoobscura and D. persimilis Genomes.Genome biology and evolution · 2024Article
- Polyploidization of Indotyphlops braminus: evidence from isoform-sequencing.BMC genomic data · 2024Article
- Highly efficient clustering of long-read transcriptomic data with GeLuster.Bioinformatics (Oxford, England) · 2024Article
- A chromosome-level genome assembly of a free-living white-crowned sparrow (Zonotrichia leucophrys gambelii).Scientific data · 2024Article
- Article
- Identification and comparison of m6A modifications in glioblastoma non-coding RNAs with MeRIP-seq and Nanopore dRNA-seq.Epigenetics · 2023Article
- Current technical advancements in plant epitranscriptomic studies.The plant genome · 2023Review
- Isoform-resolved transcriptome of the human preimplantation embryo.Nature communications · 2023Article
- AgAnimalGenomes: browsers for viewing and manually annotating farm animal genomes.Mammalian genome : official journal of the International Mammalian Genome Society · 2023Article
- nf-core/isoseq: simple gene and isoform annotation with PacBio Iso-Seq long-read sequencing.Bioinformatics (Oxford, England) · 2023Article
- Full-Length Transcriptome of the Great Himalayan Leaf-Nosed Bats (International journal of molecular sciences · 2023Article
- L-RAPiT: A Cloud-Based Computing Pipeline for the Analysis of Long-Read RNA Sequencing Data.International journal of molecular sciences · 2022Article
- Single-molecule Real-time (SMRT) Sequencing Facilitates Transcriptome Research and Genome Annotation of the Fish Sillago sinica.Marine biotechnology (New York, N.Y.) · 2022Article
- Article
15 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 3 countries.
Funding
Abstract
backgroundDespite the significance of chicken as a model organism, our understanding of the chicken transcriptome is limited compared to human. This issue is common to all non-human vertebrate annotations due to the difficulty in transcript identification from short read RNAseq data. While previous studies have used single molecule long read sequencing for transcript discovery, they did not perform RNA normalization and 5'-cap selection which may have resulted in lower transcriptome coverage and truncated transcript sequences.
resultsWe sequenced normalised chicken brain and embryo RNA libraries with Pacific Bioscience Iso-Seq. 5' cap selection was performed on the embryo library to provide methodological comparison. From these Iso-Seq sequencing projects, we have identified 60 k transcripts and 29 k genes within the chicken transcriptome. Of these, more than 20 k are novel lncRNA transcripts with ~3 k classified as sense exonic overlapping lncRNA, which is a class that is underrepresented in many vertebrate annotations. The relative proportion of alternative transcription events revealed striking similarities between the chicken and human transcriptomes while also providing explanations for previously observed genomic differences.
conclusionsOur results indicate that the chicken transcriptome is similar in complexity compared to human, and provide insights into other vertebrate biology. Our methodology demonstrates the potential of Iso-Seq sequencing to rapidly expand our knowledge of transcriptomics.
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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.