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Related Concept Videos

Genomics02:02

Genomics

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Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
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Updated: Sep 5, 2025

Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease
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Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease

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Metagenomics Bioinformatic Pipeline.

Diego Garfias-Gallegos1, Claudia Zirión-Martínez1, Edder D Bustos-Díaz2

  • 1Laboratorio de Genómica Ecológica y Evolutiva, Langebio, Cinvestav, Mexico.

Methods in Molecular Biology (Clifton, N.J.)
|July 11, 2022
PubMed
Summary

This study introduces a user-friendly pipeline for analyzing shotgun metagenomics data, simplifying complex bioinformatics tasks. It transforms raw microbial data into understandable insights on taxonomic and functional diversity.

Keywords:
AssemblyBinningData visualizationDiversityMetagenomicsTaxonomic assignmentTrimming

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Area of Science:

  • Microbiology
  • Bioinformatics
  • Genomics

Background:

  • Advances in sequencing technologies have spurred extensive research into microbial community diversity.
  • Analyzing complex metagenomic data requires significant bioinformatics expertise and numerous software tools, posing a barrier for many researchers.

Purpose of the Study:

  • To present a comprehensive and accessible bioinformatics pipeline for shotgun metagenomics data analysis.
  • To simplify the process of extracting valuable insights from raw microbial sequencing data.

Main Methods:

  • The pipeline incorporates essential bioinformatics steps: quality control, metagenomic assembly, genome binning, and taxonomic assignment.
  • It includes methods for taxonomic diversity analysis and data visualization.

Main Results:

  • The pipeline effectively processes raw shotgun metagenomics data through multiple analytical stages.
  • It facilitates the obtention of single genomes (binning) from complex microbial communities.

Conclusions:

  • This straightforward pipeline lowers the barrier to entry for shotgun metagenomics data analysis.
  • It empowers researchers to explore microbial taxonomic and functional diversity more effectively.