Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Genome Copying Errors

Genome Copying Errors

DNA replication is a well-evolved process that copies millions of base pairs with high fidelity during each cell division. Occasionally a wrong base or a long stretch of wrong bases may get added to the daughter strands. If the errors are left unchecked, cells might accumulate several mutations that might endanger their survival. Therefore, the copying errors are checked and repaired at three levels.

Mismatch Repair

Mismatch Repair

Mismatch Repair

Mismatch Repair

Organisms are capable of detecting and fixing nucleotide mismatches that occur during DNA replication. This sophisticated process requires identifying the new strand and replacing the erroneous bases with correct nucleotides. Mismatch repair is coordinated by many proteins in both prokaryotes and eukaryotes.
The Mutator Protein Family Plays a Key Role in DNA Mismatch Repair
The human genome has more than 3 billion base pairs of DNA per cell. Prior to cell division, that vast amount of genetic...

Proofreading

Proofreading

Synthesis of new DNA molecules is carried out by the enzyme DNA polymerase, which adds nucleotides on the daughter strand complementary to the template DNA strand. DNA polymerase has a higher affinity to add the correct base and ensures fidelity during DNA replication. Furthermore, it exhibits proofreading activity during replication, using an exonuclease domain that cuts off incorrect nucleotides from the nascent DNA strand.
Errors During Replication are Corrected by the DNA Polymerase...

Proofreading

Proofreading

Next-generation Sequencing

Next-generation Sequencing

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....

You might also read

Related Articles

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

Sort by

Same author

Movi 2: Fast and Space-Efficient Queries on Pangenomes.

Bioinformatics (Oxford, England)·2026

Same author

Movi Color: fast and accurate taxonomic classification with the move structure.

ACM-BCB ... ... : the ... ACM Conference on Bioinformatics, Computational Biology and Biomedicine. ACM Conference on Bioinformatics, Computational Biology and Biomedicine·2026

Same author

Minimizing reference bias with an imputed personalized reference.

Genome research·2026

Same author

RLBWT-Based LCP Computation in Compressed Space for Terabase-Scale Pangenome Analysis.

bioRxiv : the preprint server for biology·2026

Same author

Run-length compressed metagenomic read classification with SMEM-finding and tagging.

iScience·2026

Same author

KeBaB: <i>k</i>-mer based breaking for finding long MEMs.

International Symposium on String Processing and Information Retrieval : SPIRE ... : proceedings. SPIRE (Symposium)·2025

Same journal

UK Biobank whole-genome sequencing reveals robust contributions of rare variants to complex-trait heritability.

Genome biology·2026

Same journal

A one-week automated genome-wide optical pooled screen using OttoSeq.

Genome biology·2026

Same journal

Integrated lipidomic and transcriptomic profiling of the host response in human malaria.

Genome biology·2026

Same journal

Centromeric satellite expansion drives genome evolution in the snowy owl.

Genome biology·2026

Same journal

Mapping the landscape of allele-specific expression in porcine genomes.

Genome biology·2026

Same journal

Genomic sequence evolution underlying human neocortical interareal diversification.

Genome biology·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Apr 20, 2026

Rare Event Detection Using Error-corrected DNA and RNA Sequencing

Rare Event Detection Using Error-corrected DNA and RNA Sequencing

Published on: August 3, 2018

Lighter: fast and memory-efficient sequencing error correction without counting.

Li Song, Liliana Florea, Ben Langmead

|November 16, 2014

Summary

This summary is machine-generated.

Lighter is a novel tool that efficiently corrects DNA sequencing errors using Bloom filters. This method is faster and more memory-efficient than existing tools, improving data accuracy.

More Related Videos

Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms

Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms

Published on: September 13, 2018

A Nonsequencing Approach for the Rapid Detection of RNA Editing

A Nonsequencing Approach for the Rapid Detection of RNA Editing

Published on: April 21, 2022

Related Experiment Videos

Last Updated: Apr 20, 2026

Rare Event Detection Using Error-corrected DNA and RNA Sequencing

Rare Event Detection Using Error-corrected DNA and RNA Sequencing

Published on: August 3, 2018

Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms

Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms

Published on: September 13, 2018

A Nonsequencing Approach for the Rapid Detection of RNA Editing

A Nonsequencing Approach for the Rapid Detection of RNA Editing

Published on: April 21, 2022

Area of Science:

Bioinformatics
Computational Biology
Genomics

Background:

DNA sequencing technologies generate vast amounts of data.
Sequencing errors are a significant challenge in genomic analysis.
Existing error correction tools can be computationally intensive and memory-demanding.

Purpose of the Study:

To introduce Lighter, a new tool for efficient sequencing error correction.
To demonstrate Lighter's speed and memory efficiency compared to existing methods.
To validate Lighter's accuracy in correcting sequencing errors.

Main Methods:

Lighter utilizes a pair of Bloom filters for k-mer analysis, avoiding traditional k-mer counting.
One Bloom filter stores a sample of input k-mers; the second stores likely correct k-mers.
The sampling fraction is dynamically adjusted based on sequencing depth to maintain constant accuracy and filter size.

Main Results:

Lighter achieves comparable accuracy to existing tools.
Lighter demonstrates superior speed and memory efficiency.
The tool is parallelized and requires no secondary storage.

Conclusions:

Lighter offers a fast and memory-efficient solution for DNA sequencing error correction.
Its innovative use of Bloom filters provides a scalable approach for large genomic datasets.
Lighter represents a significant advancement in bioinformatics tools for error correction.