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Related Concept Videos

Quality Control01:05

Quality Control

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Quality control is one of the three cyclical quality assurance activities that help keep a system under statistical control. Typical quality control activities include creating quality control charts, conducting proficiency testing, and documenting and archiving results.
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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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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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Quality of Water01:19

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In concrete preparation, the quality of water is paramount as it affects the strength and durability of the concrete. Potable water is usually preferred; however, it must not have excessive sodium or potassium to prevent compromising the concrete's integrity. Water quality is typically evaluated based on impurities such as dissolved solids, chlorides, and sulfates, and its pH value is ideally between 6 and 8. Even slightly acidic natural water may be acceptable unless it contains harmful...
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Genome Size and the Evolution of New Genes03:21

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Related Experiment Video

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Rup (RNA-seq Usability Assessment Pipeline) - Quality Control for Bulk RNA-seq Experiments in Eukaryotes
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FastQ Screen: A tool for multi-genome mapping and quality control.

Steven W Wingett1, Simon Andrews1

  • 1Bioinformatics, Babraham Institute, Cambridge, CB22 3AT, UK.

F1000Research
|September 29, 2018
PubMed
Summary
This summary is machine-generated.

FastQ Screen validates DNA sample origins by mapping sequencing reads to multiple reference genomes. This quality control tool helps detect contamination and sample swaps, ensuring accurate experimental results.

Keywords:
Bioinformatics Contamination FastQC Illumina Metagenomics NGS QC Sequencing

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Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Standard DNA sequencing analysis maps reads to a single reference genome.
  • Confirming genome origin, detecting contamination, and identifying sample swaps are crucial for experimental validity.
  • Undetected sample mix-ups can lead to erroneous scientific conclusions.

Purpose of the Study:

  • To introduce FastQ Screen, a novel tool for validating DNA sample origins.
  • To quantify the proportion of sequencing reads mapping to a panel of reference genomes.
  • To establish a routine quality control measure for DNA sequencing data.

Main Methods:

  • Development of FastQ Screen, a bioinformatics tool.
  • Utilizing read mapping against a diverse panel of reference genomes.
  • Quantifying read proportions for each reference genome to assess sample origin.

Main Results:

  • FastQ Screen effectively quantifies read mapping proportions across multiple genomes.
  • The tool provides a reliable method for assessing the origin of DNA samples.
  • Demonstrates utility in identifying potential contamination or sample swaps.

Conclusions:

  • FastQ Screen serves as an essential quality control step in DNA sequencing analysis.
  • The tool is valuable for confirming sample identity and detecting sample mix-ups.
  • Recommended for routine use when DNA origin is uncertain or potentially mixed.