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

88.0K
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....
88.0K
RNA-seq03:21

RNA-seq

9.5K
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...
9.5K
Sanger Sequencing01:57

Sanger Sequencing

801.2K
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...
801.2K
Genomics02:02

Genomics

35.6K
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...
35.6K
Synthetic Biology02:55

Synthetic Biology

4.4K
Synthetic biology is an interdisciplinary science that involves using principles from disciplines such as engineering, molecular biology, cell biology, and systems biology. It involves remodeling existing organisms from nature or constructing completely new synthetic organisms for applications such as protein or enzyme production, bioremediation, value-added macromolecule production, and the addition of desirable traits to crops, to name a few.
Golden rice
Golden rice is a genetically modified...
4.4K
Maxam-Gilbert Sequencing01:05

Maxam-Gilbert Sequencing

10.5K
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...
10.5K

You might also read

Related Articles

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

Sort by
Same author

Discovery and biological evaluation of novel TLR2 antagonists through structure-based virtual screening and molecular dynamics simulations.

Bioorganic chemistry·2026
Same author

[Analysis on acupuncture of <i>Tiaoshen Dongjin</i> in treating spastic paralysis after stroke based on the "brain-meridian-sinew"].

Zhongguo zhen jiu = Chinese acupuncture & moxibustion·2026
Same author

Efficacy and safety of acupuncture for post-stroke spasticity: a study protocol for a randomized controlled trial.

Frontiers in neurology·2026
Same author

Design, synthesis, and evaluation of 3-fluoro-2-hydroxybenzaldehyde derivatives as TLR2 small molecule antagonists.

Bioorganic chemistry·2026
Same author

Acupuncture therapy for post-stroke spasticity: a systematic review and exploratory network meta-analysis of clinical efficacy and dose-response relationship.

Frontiers in neurology·2026
Same author

Polymer-Based Flexible Wireless Sensors for Health Monitoring.

Nano-micro letters·2026

Related Experiment Video

Updated: May 7, 2026

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons
10:24

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons

Published on: August 29, 2014

85.9K

NeSSM: a Next-generation Sequencing Simulator for Metagenomics.

Ben Jia1, Liming Xuan, Kaiye Cai

  • 1School of Biomedical Engineering, Shanghai Jiao Tong University, Shanghai, China.

Plos One
|October 15, 2013
PubMed
Summary

NeSSM is a fast and accurate metagenome sequencing simulator. This Next-generation Sequencing Simulator for Metagenomics (NeSSM) aids in developing and comparing metagenomics analysis tools.

More Related Videos

Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease
09:34

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

Published on: April 4, 2018

36.1K
Nanopore DNA Sequencing for Metagenomic Soil Analysis
07:33

Nanopore DNA Sequencing for Metagenomic Soil Analysis

Published on: December 14, 2017

32.5K

Related Experiment Videos

Last Updated: May 7, 2026

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons
10:24

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons

Published on: August 29, 2014

85.9K
Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease
09:34

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

Published on: April 4, 2018

36.1K
Nanopore DNA Sequencing for Metagenomic Soil Analysis
07:33

Nanopore DNA Sequencing for Metagenomic Soil Analysis

Published on: December 14, 2017

32.5K

Area of Science:

  • Microbiology
  • Bioinformatics
  • Computational Biology

Background:

  • Metagenomics enables the study of unculturable microbes, driving demand for high-fidelity sequencing simulation systems.
  • Accurate simulation tools are crucial for developing and comparing metagenomics analysis pipelines.

Purpose of the Study:

  • To develop a customizable and high-fidelity metagenome sequencing simulation system.
  • To improve the accuracy of simulated metagenomic data by incorporating error models and coverage bias.

Main Methods:

  • NeSSM integrates complete genomes, community composition, and sequencing parameters.
  • It incorporates explicit base-level error distribution models and coverage bias.
  • Tools are provided to estimate these parameters directly from existing metagenomic data.

Main Results:

  • NeSSM simulates metagenome sequencing with high fidelity, outperforming existing simulators like MetaSim, GemSIM, and Grinder.
  • It supports single-end and pair-end sequencing for 454 and Illumina platforms.
  • A GPU-accelerated version of NeSSM achieves over a tenfold speed increase compared to MetaSim.

Conclusions:

  • NeSSM is a fast, high-throughput metagenome sequencing simulation system.
  • It facilitates the development and evaluation of metagenomics analysis tools and strategies.
  • NeSSM is freely available for academic use.