Transcript abundance of equine spermatozoa
Ontology highlight
ABSTRACT:
ORGANISM(S): Equus caballus
PROVIDER: GSE75350 | GEO | 2016/11/01
SECONDARY ACCESSION(S): PRJNA303992
REPOSITORIES: GEO
Similar Datasets
Project description:This dataset contains raw and processed LC–MS/MS data from a paired proteomic analysis of seminal plasma and spermatozoa fractions obtained from the same ejaculates of two adult stallions. Samples were analyzed using a Vanquish nanoLC system coupled to an Orbitrap Exploris 240 mass spectrometer operated in data-dependent acquisition (DDA) mode. Database searches were performed in Proteome Discoverer (v3.1) using the Sequest HT search engine against the Equus caballus UniProt reference proteome (UP000002281). Peptide and protein identifications were filtered at 1% FDR with a minimum of two unique peptides per protein. The dataset supports abundance-based comparison of functional specialization between seminal plasma and spermatozoa compartments.
2026-05-21 | PXD074771 | Pride
Project description:MicroRNAs (miRNAs) are involved in nearly every biological process examined to date. Mounting evidence show that some spermatozoa specific miRNAs play important roles in the regulation of spermatogenesis and germ cells development, but little is known of the exact identity and function of miRNA in sperm cells or their potential involvement in spermatogenesis and germ cells development. Here, we investigated the spermatozoa miRNA profiles using illumina deep sequencing combined with bioinformatic analysis using zebrafish as a model system. Deep sequencing of small RNAs yielded 12 million raw reads from zebrafish spermatozoa. Analysis showed that the noncoding RNA of the spermatozoa included tRNA, rRNA, snRNA, snoRNA and miRNA. By mapping to the zebrafish genome, we identified 400 novel and 204 conserved miRNAs which could be grouped into 104 families, including zebrafish specific families, such as mir-731, mir-724, mir-725, mir-729 and mir-2185. We report the first characterization of the miRNAs profiling in zebrafish spermatozoa. The obtained spermatozoa miRNAs profiling will serve as valuable resources to systematically study spermatogenesis in fish and vertebrate.
2015-04-01 | GSE61984 | GEO
Project description:We reported RNA profiles of mice spermatozoa, a total of 35,288,825 reads matching 33,039 transcripts, including 27,310 coding transcripts, were obtained.
2014-07-09 | GSE59172 | GEO
Project description:MicroRNAs (miRNAs) are involved in nearly every biological process examined to date. Mounting evidence show that some spermatozoa specific miRNAs play important roles in the regulation of spermatogenesis and germ cells development, but little is known of the exact identity and function of miRNA in sperm cells or their potential involvement in spermatogenesis and germ cells development. Here, we investigated the spermatozoa miRNA profiles using illumina deep sequencing combined with bioinformatic analysis using zebrafish as a model system. Deep sequencing of small RNAs yielded 12 million raw reads from zebrafish spermatozoa. Analysis showed that the noncoding RNA of the spermatozoa included tRNA, rRNA, snRNA, snoRNA and miRNA. By mapping to the zebrafish genome, we identified 400 novel and 204 conserved miRNAs which could be grouped into 104 families, including zebrafish specific families, such as mir-731, mir-724, mir-725, mir-729 and mir-2185. We report the first characterization of the miRNAs profiling in zebrafish spermatozoa. The obtained spermatozoa miRNAs profiling will serve as valuable resources to systematically study spermatogenesis in fish and vertebrate. Examination of small RNA populations in zebrafish spermatozoa
2015-04-01 | E-GEOD-61984 | biostudies-arrayexpress
Project description:We reported RNA profiles of mice spermatozoa, a total of 35,288,825 reads matching 33,039 transcripts, including 27,310 coding transcripts, were obtained. RNA profiles of the spermatozoa of 9-10 weeks adult mice were sequenced by RNA-seq,using Illumina GAIIx.
2014-07-09 | E-GEOD-59172 | biostudies-arrayexpress
Project description:A study utilizing next-generation sequencing provided a comprehensive expression profile of murine spermatozoa, revealing the transcriptional landscape of mature sperm isolated from the corpus and cauda epididymides of C57BL/6 mice. By analyzing RNA content, we identified a distinct set of retained transcripts, including those encoding sperm-specific ion channels, as well as transcripts associated with sperm motility, capacitation, and the acrosome reaction. In addition to spermatozoa, the study also reported the transcriptional profiling of murine leukocytes, providing comparative insights into cell-type-specific gene expression. This study advances our understanding of sperm transcriptomics and its implications for male fertility
2025-04-02 | GSE290696 | GEO
Project description:Genome-wide DNA methylation profile of human spermatozoa using the meDIP technique and massively parallel sequencing
2008-05-31 | E-TABM-482 | biostudies-arrayexpress
Project description:Genome-wide DNA methylation profile of human spermatozoa using the meDIP technique and massively parallel sequencing. DNA methylation is an indispensible epigenetic modification required for regulating the expression of mammalian genomes. Immunoprecipitation-based methods for DNA methylome analysis are rapidly shifting the bottleneck in this field from data generation to data analysis, necessitating the development of better analytical tools. In particular, an inability to estimate absolute methylation levels remains a major analytical difficulty associated with immunoprecipitation-based DNA methylation profiling. To address this issue, we developed a cross-platform algorithm-Bayesian tool for methylation analysis (Batman)-for analyzing methylated DNA immunoprecipitation (MeDIP) profiles generated using oligonucleotide arrays (MeDIP-chip) or next-generation sequencing (MeDIP-seq). We developed the latter approach to provide a high-resolution whole-genome DNA methylation profile (DNA methylome) of a mammalian genome. Strong correlation of our data, obtained using mature human spermatozoa, with those obtained using bisulfite sequencing suggest that combining MeDIP-seq or MeDIP-chip with Batman provides a robust, quantitative and cost-effective functional genomic strategy for elucidating the function of DNA methylation. ArrayExpress Release Date: 2008-06-10 Publication Title: A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis Publication Author List: Thomas A Down; Vardhman K Rakyan; Daniel J Turner; Paul Flicek; Heng Li; Eugene Kulesha; Stefan Gräf; Nathan Johnson; Javier Herrero; Eleni M Tomazou; Natalie P Thorne; Liselotte Bäckdahl; Marlis Herberth; Kevin L Howe; David K Jackson; Marcos M Miretti; John C Marioni; Ewan Birney; Tim J P Hubbard; Richard Durbin; Simon Tavaré; Stephan Beck Person Roles: submitter; investigator Person Last Name: Flicek Person First Name: Paul Person Mid Initial Person Email: flicek@ebi.ac.uk Person Address: Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK Person Affiliation: European Bioinformatics Institute
2011-02-05 | GSE25686 | GEO
Project description: Not available
| S-EPMC4094196 | biostudies-literature
Project description:IGF2BP3 Inhibits Translation in Round Spermatozoa
| PRJNA1077948 | ENA