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

Genome Annotation and Assembly03:36

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
Maxam-Gilbert Sequencing01:05

Maxam-Gilbert Sequencing

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...
RNA-seq03:21

RNA-seq

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 microarray-based...
Next-generation Sequencing03:00

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

Descriptor-guided thermodynamic screening of [Formula: see text] adsorption on single-atom-doped anatase [Formula: see text] nanoparticles with interpretable machine learning.

Scientific reports·2026
Same author

Engineered MgO Nanoparticles with Tunable Electronic Signatures for Energy Applications.

ACS omega·2026
Same author

Accelerating Facial Anomaly Appraisal: A Knowledge Distillation Approach.

Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference·2025
Same author

Facial Anomaly Appraisal Using Discrepancy Optimization-Driven Automatic Inpainting.

IEEE journal of biomedical and health informatics·2025
Same author

CXR-Seg: A Novel Deep Learning Network for Lung Segmentation from Chest X-Ray Images.

Bioengineering (Basel, Switzerland)·2025
Same author

Adapting a style based generative adversarial network to create images depicting cleft lip deformity.

Scientific reports·2025
Same journal

Learning directed acyclic graphs from large-scale genomics data.

EURASIP journal on bioinformatics & systems biology·2017
Same journal

Bayesian inference for biomarker discovery in proteomics: an analytic solution.

EURASIP journal on bioinformatics & systems biology·2017
Same journal

Review of stochastic hybrid systems with applications in biological systems modeling and analysis.

EURASIP journal on bioinformatics & systems biology·2017
Same journal

Using multi-step proposal distribution for improved MCMC convergence in Bayesian network structure learning.

EURASIP journal on bioinformatics & systems biology·2017
Same journal

On biometric systems: electrocardiogram Gaussianity and data synthesis.

EURASIP journal on bioinformatics & systems biology·2017
Same journal

Biomedical informatics with optimization and machine learning.

EURASIP journal on bioinformatics & systems biology·2017
See all related articles

Related Experiment Video

Updated: May 16, 2026

Novel Sequence Discovery by Subtractive Genomics
09:40

Novel Sequence Discovery by Subtractive Genomics

Published on: January 25, 2019

Optimal reference sequence selection for genome assembly using minimum description length principle.

Bilal Wajid1, Erchin Serpedin, Mohamed Nounou

  • 1Department of Electrical and Computer Engineering, Texas A&M University, College Station, TX 77843-3128, USA. bilalwajidabbas@hotmail.com.

EURASIP Journal on Bioinformatics & Systems Biology
|November 29, 2012
PubMed
Summary
This summary is machine-generated.

The minimum description length (MDL) principle offers a superior method for selecting reference sequences in genome assembly compared to standard read alignment counts. This approach enhances reference sequence suitability for novel genome assembly.

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

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies
12:08

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Published on: August 20, 2021

Related Experiment Videos

Last Updated: May 16, 2026

Novel Sequence Discovery by Subtractive Genomics
09:40

Novel Sequence Discovery by Subtractive Genomics

Published on: January 25, 2019

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

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies
12:08

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Published on: August 20, 2021

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Reference-assisted genome assembly relies on a model reference sequence.
  • Current methods select references based solely on the highest number of aligning reads.

Purpose of the Study:

  • To explore the Minimum Description Length (MDL) principle for optimal reference sequence selection in genome assembly.
  • To compare MDL-based methods against standard read alignment approaches.

Main Methods:

  • Application of the two-part MDL and Sophisticated MDL principles.
  • Comparison of MDL-based selection with the standard read alignment count method.

Main Results:

  • The standard method of counting aligning reads is insufficient for optimal reference selection.
  • The proposed MDL scheme incorporates read alignment counts and reference sequence characteristics.

Conclusions:

  • The MDL-based scheme provides a sufficient criterion for identifying optimal reference sequences.
  • The MDL approach improves reference sequence suitability for novel genome assembly.