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Related Concept Videos

Proteomics01:33

Proteomics

7.3K
A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...
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Spermatogenesis01:41

Spermatogenesis

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Spermatogenesis is the process by which haploid sperm cells are produced in the male testes. It starts with stem cells located close to the outer rim of seminiferous tubules. These spermatogonial stem cells divide asymmetrically to give rise to additional stem cells (meaning that these structures “self-renew”), as well as sperm progenitors, called spermatocytes. Importantly, this method of asymmetric mitotic division maintains a population of spermatogonial stem cells in the male...
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Sperm Structure and Semen Composition01:22

Sperm Structure and Semen Composition

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During ejaculation, males release around 2-5 milliliters of semen, which is a complex mixture of mature sperm and various fluids produced by accessory glands. The mature sperm cells measure approximately 60 micrometers in length and consist of a head, neck, midpiece, and tail. The head is flattened and tapered, measuring about 4 to 5 micrometers in length. It contains a nucleus with condensed chromosomes and an acrosome, a cap-like structure filled with enzymes essential for penetrating the...
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Updated: Jun 18, 2025

Phosphopeptide Analysis of Rodent Epididymal Spermatozoa
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ShinySperm: navigating the sperm proteome landscape.

David A Skerrett-Byrne1, Raffaele Teperino2, Brett Nixon3

  • 1Priority Research Centre for Reproductive Science, School of Environmental and Life Sciences, College of Engineering, Science and Environment, The University of Newcastle, Callaghan, NSW 2308, Australia; and Infertility and Reproduction Research Program, Hunter Medical Research Institute, New Lambton Heights, NSW 2305, Australia; and Institute of Experimental Genetics, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg, Germany; and German Center for Diabetes Research (DZD), Neuherberg, Germany.

Reproduction, Fertility, and Development
|August 1, 2024
PubMed
Summary
This summary is machine-generated.

Researchers developed ShinySperm, an interactive web application for exploring sperm proteome data. This tool enhances understanding of protein functions and abundance in reproductive biology research.

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Area of Science:

  • Reproductive Biology
  • Proteomics
  • Bioinformatics

Background:

  • Integrated omics studies are vital for reproductive biology but generate complex data often inaccessible for interactive analysis.
  • Current supplementary data files lack features for users to easily interrogate and visualize specific data points.

Purpose of the Study:

  • To develop an interactive web-based application for detailed interrogation of sperm proteome data.
  • To facilitate a deeper understanding of identified proteins, their abundance, classifications, functions, and associated phenotypes.

Main Methods:

  • Developed ShinySperm, a web application using R and libraries like dplyr, DT, ggplot2, and plotly.
  • Implemented a responsive user interface with dynamic filtering, interactive charts, and data export capabilities.

Main Results:

  • ShinySperm enables interactive searching, filtering, and visualization of sperm proteomics data.
  • Users can explore data based on protein classification, cell domain, and maturation stages, with live-updating plots and tables.

Conclusions:

  • ShinySperm offers a robust platform for dynamic exploration of epididymal sperm proteome data.
  • The application significantly improves accessibility and interpretability of complex omics datasets for data-driven insights.