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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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Self-Help Support Groups01:28

Self-Help Support Groups

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Self-help support groups are voluntary, community-based organizations that provide a platform for individuals with shared concerns to exchange support, insights, and practical strategies for coping with life challenges. Typically led by group members or paraprofessionals, these groups form a cornerstone of mental health care, especially in reaching populations that are underserved by traditional healthcare systems.
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Genomic Imprinting and Inheritance02:30

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Diploid organisms inherit genetic material through chromosomes from both parents. Copies of the same gene are known as alleles. In most cases, both alleles are simultaneously expressed and allow various cellular processes to function optimally. If one of the alleles is missing or mutated, the expression of the other allele can compensate; however, this is not true for all genes.
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Support Reactions01:30

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A coplanar force system refers to a set of forces that all lie in the same plane and are subject to different reactions between the point of contact and the supports. Understanding how different types of supports affect coplanar forces is crucial for designing safe and reliable structures that can withstand external loads.
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The present-day mitochondrial and chloroplast genomes have retained some of the characteristics of their ancestral prokaryotes and also have acquired new attributes during their evolution within eukaryotic cells. Like prokaryotic genomes, mitochondrial and chloroplast genomes neither bind with histone-like proteins nor show complex packaging into chromosome-like structures, as observed in eukaryotes. Unlike mitotic cell divisions observed in eukaryotic cells, mitochondria and chloroplasts...
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Genome Size and the Evolution of New Genes03:21

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While every living organism has a genome of some kind (be it RNA, or DNA), there is considerable variation in the sizes of these blueprints. One major factor that impacts genome size is whether the organism is prokaryotic or eukaryotic. In prokaryotes, the genome contains little to no non-coding sequence, such that genes are tightly clustered in groups or operons sequentially along the chromosome. Conversely, the genes in eukaryotes are punctuated by long stretches of non-coding sequence.
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Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease
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Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African

Shakuntala Baichoo1, Yassine Souilmi2, Sumir Panji3

  • 1Department of Digital Technologies, University of Mauritius, Reduit, Mauritius. shakunb@uom.ac.mu.

BMC Bioinformatics
|November 30, 2018
PubMed
Summary
This summary is machine-generated.

The Pan-African bioinformatics network, H3ABioNet, developed four reproducible and portable genomic data analysis workflows to support African health research. These bioinformatics tools enhance genomics research capacity and scientific output across Africa.

Keywords:
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Area of Science:

  • Bioinformatics
  • Genomics
  • Computational Biology

Background:

  • H3ABioNet is a Pan-African bioinformatics network supporting the Human Health and Heredity in Africa (H3Africa) program.
  • It aims to improve African health through genomics by building bioinformatics infrastructure for diverse computing environments.
  • Genomic data analysis involves complex, interdependent workflows that are challenging to implement scalably and reproducibly.

Purpose of the Study:

  • To develop portable and reproducible bioinformatics workflows for H3Africa projects.
  • To address the challenges of processing and analyzing large-scale genomic data in Africa.
  • To enhance bioinformatics capacity and genomics research within Africa.

Main Methods:

  • Developed four distinct bioinformatics workflows for variant calling, microbial population analysis, genotyping/GWAS, and SNP imputation.
  • Utilized Common Workflow Language (CWL) and Nextflow frameworks for workflow development.
  • Containerized workflows using Docker for enhanced portability and reproducibility.

Main Results:

  • Successfully developed four key bioinformatics workflows supporting critical genomic analyses.
  • Workflows are containerized using Docker, ensuring portability and reproducibility across different systems.
  • All four workflows are publicly available to the H3Africa consortium and the global research community.

Conclusions:

  • The H3ABioNet workflows offer ease of use, high reproducibility, and portability, adhering to modern bioinformatics standards.
  • These workflows are actively used by H3Africa projects and are available for worldwide adaptation.
  • They are expected to boost bioinformatics capacity, support genomics research in Africa, and increase scientific output.