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Related Concept Videos

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.
Sanger Sequencing01:57

Sanger Sequencing

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...
Genomics02:02

Genomics

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...
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
Applications of Molecular Taxonomy01:20

Applications of Molecular Taxonomy

Molecular taxonomy has revolutionized the understanding and classification of bacteria, providing precise insights into their diversity, evolutionary relationships, and ecological roles. By utilizing molecular techniques such as DNA sequencing and fingerprinting, researchers have made significant strides in various fields related to bacterial studies.Resolving Taxonomic AmbiguitiesMolecular taxonomy has been instrumental in distinguishing closely related bacterial species initially thought to...
DNA Microarrays02:34

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

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Related Experiment Video

Updated: May 24, 2026

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens
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Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens

Published on: June 28, 2018

Visualizing next-generation sequencing data with JBrowse.

Oscar Westesson1, Mitchell Skinner, Ian Holmes

  • 1Department of Bioengineering, University of California, Berkeley, CA, USA.

Briefings in Bioinformatics
|March 14, 2012
PubMed
Summary
This summary is machine-generated.

JBrowse is a web-based genome browser that visualizes genomic data efficiently. Its design enables fast, interactive exploration of large datasets like next-generation sequencing reads.

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High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture (4C-seq)

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Related Experiment Videos

Last Updated: May 24, 2026

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens
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Published on: June 28, 2018

Integration of Wet and Dry Bench Processes Optimizes Targeted Next-generation Sequencing of Low-quality and Low-quantity Tumor Biopsies
13:24

Integration of Wet and Dry Bench Processes Optimizes Targeted Next-generation Sequencing of Low-quality and Low-quantity Tumor Biopsies

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High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture (4C-seq)
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High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture (4C-seq)

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Area of Science:

  • Bioinformatics
  • Genomics
  • Computational Biology

Background:

  • Genome browsers are essential tools for visualizing and interpreting large-scale genomic data.
  • Existing browsers may face challenges with high-volume datasets, impacting performance and user experience.

Purpose of the Study:

  • To introduce JBrowse, a novel web-based genome browser.
  • To highlight JBrowse's capabilities in handling and visualizing diverse genomic data sources.

Main Methods:

  • JBrowse employs efficient data structures for data organization.
  • Pre-generation of image tiles optimizes data retrieval and display.
  • Client-side rendering ensures a fast and interactive user experience.

Main Results:

  • JBrowse provides a coherent visual framework for navigating complex genomic information.
  • The browser demonstrates a fast and interactive browsing experience, even with large datasets.
  • Its architecture is well-suited for visualizing high-volume data, including next-generation sequencing reads.

Conclusions:

  • JBrowse offers an effective solution for visualizing and interpreting large-scale genomic data.
  • The platform's performance and features make it a valuable tool for genomic research.
  • JBrowse facilitates the exploration of complex biological datasets through its efficient design.