ArticleBMC genomics2013
RNA-seq analysis of single bovine blastocysts.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
44 citing papers in PubMed, 93 citations in OpenAlex.
- Genomic evaluation and gene expression analysis of preimplantation embryos for enhancing cattle breeding and in vitro embryo production.The Journal of reproduction and development · 2026Review
- Statistical framework for calling allelic imbalance in high-throughput sequencing data.Nature communications · 2025Article
- Identification ofInternational journal of molecular sciences · 2024Article
- Elucidation of the pluripotent potential of bovine embryonic lineages facilitates the establishment of formative stem cell lines.Cellular and molecular life sciences : CMLS · 2024Article
- Identification of novel cattle (Bos taurus) genes and biological insights of their function in pre-implantation embryo development.BMC genomics · 2024Article
- Evaluation of bovine embryo quality based on gene expression profiling using whole-transcriptome amplification.The Journal of reproduction and development · 2024Article
- Deregulation of oxidative phosphorylation pathways in embryos derived in vitro from prepubertal and pubertal heifers based on whole-transcriptome sequencing.BMC genomics · 2024Article
- RNA sequencing and gene co-expression network ofAnimal reproduction · 2024Article
- Adaptative response to changes in pyruvate metabolism on the epigenetic landscapes and transcriptomics of bovine embryos.Scientific reports · 2023Article
- Pre-Implantation Bovine Embryo Evaluation-From Optics to Omics and Beyond.Animals : an open access journal from MDPI · 2023Review
- mRNA Signatures in Peripheral White Blood Cells Predict Reproductive Potential in Beef Heifers at Weaning.Genes · 2023Article
- Comprehensive transcriptomic analysis of long non-coding RNAs in bovine ovarian follicles and early embryos.PloS one · 2023Review
- Mining RNAseq data reveals dynamic metaboloepigenetic profiles in human, mouse and bovine pre-implantation embryos.iScience · 2022Article
- Genome-wide transcriptome profiling uncovers differential miRNAs and lncRNAs in ovaries of Hu sheep at different developmental stages.Scientific reports · 2021Article
- An improved method for specific-target preamplification PCR analysis of single blastocysts useful for embryo sexing and high-throughput gene expression analysis.Journal of dairy science · 2021Article
- Transcript profiling of bovine embryos implicates specific transcription factors in the maternal-to-embryo transition.Biology of reproduction · 2020Article
- Multi-tissue observation of the long non-coding RNA effects on sexually biased gene expression in cattle.Asian-Australasian journal of animal sciences · 2019Article
- Comparative Analysis of the Liver Transcriptome among Cattle Breeds Using RNA-seq.Veterinary sciences · 2019Article
- Survey of allele specific expression in bovine muscle.Scientific reports · 2019Article
- The GATK joint genotyping workflow is appropriate for calling variants in RNA-seq experiments.Journal of animal science and biotechnology · 2019Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
backgroundUse of RNA-Seq presents unique benefits in terms of gene expression analysis because of its wide dynamic range and ability to identify functional sequence variants. This technology provides the opportunity to assay the developing embryo, but the paucity of biological material available from individual embryos has made this a challenging prospect.
resultsWe report here the first application of RNA-Seq for the analysis of individual blastocyst gene expression, SNP detection, and characterization of allele specific expression (ASE). RNA was extracted from single bovine blastocysts (n = 5), amplified, and analyzed using high-throughput sequencing. Approximately 38 million sequencing reads were generated per embryo and 9,489 known bovine genes were found to be expressed, with a high correlation of expression levels between samples (r > 0.97). Transcriptomic data was analyzed to identify SNP in expressed genes, and individual SNP were examined to characterize allele specific expression. Expressed biallelic SNP variants with allelic imbalances were observed in 473 SNP, where one allele represented between 65-95% of a variant's transcripts.
conclusionsThis study represents the first application of RNA-seq technology in single bovine embryos allowing a representation of the embryonic transcriptome and the analysis of transcript sequence variation to describe specific allele expression.
Indexed as
Identifiers
What OpenQuestion holds
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.