Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Next-generation Sequencing03:00

Next-generation Sequencing

88.6K
The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features....
88.6K
Sanger Sequencing01:57

Sanger Sequencing

754.0K
DNA sequencing is a fundamental technique that is routinely used in the biological sciences. This method can be applied to a range of questions at different scales - from the sequencing of a cloned DNA fragment or the study of a mutation in a gene up to whole-genome sequencing. However, despite the widespread use of sequencing today, it was not until 1977 that Fredrick Sanger and his collaborators developed the chain-termination method to decode DNA sequences. It relies on the separation of a...
754.0K
RNA-seq03:21

RNA-seq

9.9K
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
9.9K
Maxam-Gilbert Sequencing01:05

Maxam-Gilbert Sequencing

11.2K
In the same year as the discovery of the Sanger sequencing method, another group of scientists, Allan Maxam and Walter Gilbert, demonstrated their chemical-cleavage method for DNA sequencing. The Maxam-Gilbert method relies on using different chemicals that can cleave the DNA sequence at specific sites, the separation of resulting DNA fragments of variable size using electrophoresis, and deciphering the DNA sequence from the resulting gel bands.
Challenges of the Maxam-Gilbert Method
The...
11.2K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same authorSame journal

Comparison of key diagnostics for probabilistic interpretation of STR mixture data generated with length-based and MPS methodologies.

Forensic science international. Genetics·2026
Same author

Dual Roles of Voltage-gated Calcium Channels and γ-Aminobutyric Acid-mediated Signaling in Modulating Neurotensin Receptor Type 2-induced Antinociception.

Anesthesiology·2026
Same author

Coronary sinus reducer implantation for refractory angina: a national audit of UK practice.

Heart (British Cardiac Society)·2026
Same author

Identification of low threshold off-target activation pathways during stimulation of carotid baroreceptor afferents in swine.

Journal of neural engineering·2026
Same author

Deoxygenative Olefin Insertion of Cyclic Alcohols Promoted by Sulfoxide Cation Radicals.

Journal of the American Chemical Society·2026
Same author

An evaluation of ForenSeq DNA Signature Prep iiSNP mixture interpretation using a probabilistic genotyping method.

Forensic science international. Genetics·2026
Same journal

Likelihood Ratios Given Activity-Level Propositions for DNA Transfer Evidence: Theoretical Foundations of the HaloGen Framework (Part I).

Forensic science international. Genetics·2026
Same journal

Likelihood Ratios Given Activity-Level Propositions for DNA Transfer Evidence: Practical Implementation and Simulation Studies Using the HaloGen Engine (Part II).

Forensic science international. Genetics·2026
Same journal

Forensic evaluation of 101 identity-informative SNPs in a Filipino population using massively parallel sequencing.

Forensic science international. Genetics·2026
Same journal

Reprocessing of hair roots using conventional forensic DNA analysis following RapidHIT® ID processing.

Forensic science international. Genetics·2026
Same journal

Analysis of low-input and degraded forensic DNA trace samples with NGS using the MiSeq FGx platform.

Forensic science international. Genetics·2026
See all related articles

Related Experiment Video

Updated: Jun 23, 2025

Rare Event Detection Using Error-corrected DNA and RNA Sequencing
10:36

Rare Event Detection Using Error-corrected DNA and RNA Sequencing

Published on: August 3, 2018

12.1K

Sequencing-induced artefacts in NGS STR data.

Yao-Yuan Liu1, Kevin Cheng1, Rebecca Just2

  • 1ESR Limited, Private Bag 92021, Auckland, New Zealand.

Forensic Science International. Genetics
|June 19, 2024
PubMed
Summary
This summary is machine-generated.

Noise spikes in Next Generation Sequencing (NGS) can create artefacts that mimic real DNA alleles. This study identifies these "noise spike artefacts" in MiSeq FGx data and presents methods for their detection and differentiation from authentic STR sequences.

Keywords:
Forensic geneticsMiSeq FGxNoise spikesQuality scoresSTRsSequencing artifacts

More Related Videos

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing
11:11

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Published on: August 24, 2017

16.8K
Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms
09:30

Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms

Published on: September 13, 2018

9.5K

Related Experiment Videos

Last Updated: Jun 23, 2025

Rare Event Detection Using Error-corrected DNA and RNA Sequencing
10:36

Rare Event Detection Using Error-corrected DNA and RNA Sequencing

Published on: August 3, 2018

12.1K
Detection of Rare Mutations in CtDNA Using Next Generation Sequencing
11:11

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Published on: August 24, 2017

16.8K
Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms
09:30

Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms

Published on: September 13, 2018

9.5K

Area of Science:

  • Forensic Science
  • Genetics
  • Molecular Biology

Background:

  • Next Generation Sequencing (NGS) offers advancements in forensic Short Tandem Repeat (STR) analysis.
  • High read count noise sequences in MiSeq FGx data pose challenges in distinguishing genuine alleles.
  • These noise sequences often present as single base substitutions from known alleles.

Purpose of the Study:

  • To investigate the origin and characteristics of high read count noise sequences observed in MiSeq FGx DNA profiles.
  • To identify and characterize specific artefacts, termed "noise spike artefacts", generated during sequencing.
  • To develop methods for detecting and differentiating these artefacts from authentic STR alleles.

Main Methods:

  • Analysis of DNA profiles generated using the MiSeq FGx sequencing system and ForenSeq DNA Signature Prep Kit.
  • Examination of noise sequences for characteristic base substitutions and their positions.
  • Mapping of noise events to identify "noise spikes" within sequencing runs.
  • Investigation of noise spike genesis during sequencing-by-synthesis (SBS) cycles.

Main Results:

  • High read count noise sequences often result from base substitutions at specific "noise spike" positions within amplicons.
  • These noise spikes occur at consistent positions within a run but vary in location and amplitude across different runs.
  • The majority of problematic noise sequences are classified as "noise spike artefacts" originating from these specific positions.

Conclusions:

  • Noise spike artefacts are a significant challenge in MiSeq FGx STR analysis.
  • Understanding the genesis of these artefacts during SBS cycles is crucial for accurate interpretation.
  • Methods for detecting and differentiating noise spike artefacts are essential for forensic laboratories using MiSeq FGx data.