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 Experiment Videos

Consed: a graphical tool for sequence finishing

D Gordon1, C Abajian, P Green

  • 1Department of Molecular Biotechnology, University of Washington, Seattle, Washington 98195-7730, USA. gordon@genome.washington.edu

Genome Research
|May 16, 1998
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

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

Sort by
Same author

Transvaginal sonohysterography for the evaluation and treatment of retained products of conception.

Gynecologic and obstetric investigation·2000
Same author

[PVT--tension-free vaginal tape--a new minimally invasive surgical technique for female stress incontinence: preliminary results].

Harefuah·2000
Same author

[Pelvic floor exercise and biofeedback in women with urinary stress incontinence].

Harefuah·2000
Same author

Ceftriaxone-resistant Salmonella infection from antibiotic-treated cattle.

Gastroenterology·2000
Same author

Promising cancer drug may be De-TRAILed by liver toxicity concerns.

Gastroenterology·2000
Same author

Physical and chemical cooperation between somatostatin and dopamine receptors.

Gastroenterology·2000
Same journal

Complete sequencing of medaka genomes reveals the architecture of centromeric satellites, giant mobile elements, and sex chromosomes.

Genome research·2026
Same journal

Convergence and conflict among telomere specialized transposons across 60 million years of Drosophilid evolution.

Genome research·2026
Same journal

A unified analysis of cell type- and trajectory-associated pathways in single-cell data using Phoenix.

Genome research·2026
Same journal

Resf1 is required for proper placental development and configuration of trophoblast cell-specific heterochromatin.

Genome research·2026
Same journal

Telomere-driven replicative crisis is driven by large-scale changes in genomic architecture.

Genome research·2026
Same journal

Spatially informed reference-free cell-type deconvolution for spatial transcriptomics with SpatialCD.

Genome research·2026
See all related articles

The consed tool streamlines DNA sequencing by automating the finishing phase, reducing manual effort and improving efficiency. It uses error probabilities to guide assembly correction, accelerating genomic research.

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Large-scale genome sequencing relies on the shotgun approach, comprising shotgun and finishing phases.
  • The finishing phase is a critical bottleneck, requiring significant human intervention for error correction and gap closure.

Purpose of the Study:

  • To develop an automated tool to improve the efficiency and accuracy of the DNA sequencing finishing phase.
  • To reduce the manual effort and human intervention required in large-scale sequencing projects.

Main Methods:

  • Development of a novel finishing tool named consed.
  • Integration of error probabilities generated by phred and phrap.
  • Utilizing objective criteria derived from error probabilities to guide the finishing process.

Related Experiment Videos

Main Results:

  • Consed implements principles to enhance finishing efficiency and reduce human intervention.
  • The tool leverages error probabilities for objective decision-making in assembly correction.
  • Potential for significant throughput gains in large-scale sequencing efforts.

Conclusions:

  • Consed offers a more efficient and objective approach to DNA sequencing finishing.
  • Automation of the finishing phase is crucial for advancing genomic research.
  • The tool's reliance on error probabilities represents a key innovation in sequence assembly.