The search result changed since you submitted your search request. Documents might be displayed in a different sort order.
  • search hit 18 of 46
Back to Result List

Improving draft genome contiguity with reference-derived in silico mate-pair libraries

  • Background Contiguous genome assemblies are a highly valued biological resource because of the higher number of completely annotated genes and genomic elements that are usable compared to fragmented draft genomes. Nonetheless, contiguity is difficult to obtain if only low coverage data and/or only distantly related reference genome assemblies are available. Findings In order to improve genome contiguity, we have developed Cross-Species Scaffolding—a new pipeline that imports long-range distance information directly into the de novo assembly process by constructing mate-pair libraries in silico. Conclusions We show how genome assembly metrics and gene prediction dramatically improve with our pipeline by assembling two primate genomes solely based on ∼30x coverage of shotgun sequencing data.

Export metadata

Additional Services

Share in Twitter Search Google Scholar Statistics
Metadaten
Author:José Horacio Grau, Thomas Hackl, Klaus-Peter Koepfli, Michael HofreiterORCiDGND
DOI:https://doi.org/10.1093/gigascience/giy029
ISSN:2047-217X
Parent Title (English):GigaScience
Publisher:Oxford University Press
Place of publication:Oxford
Document Type:Article
Language:English
Date of first Publication:2018/04/21
Year of Completion:2018
Release Date:2018/11/09
Tag:genome assembly; in silico; mate-pairs; scaffolding; shotgun sequencing
Volume:7
Issue:5
First Page:1
Last Page:6
Organizational units:Mathematisch-Naturwissenschaftliche Fakultät / Institut für Biochemie und Biologie
Dewey Decimal Classification:5 Naturwissenschaften und Mathematik / 57 Biowissenschaften; Biologie / 570 Biowissenschaften; Biologie
6 Technik, Medizin, angewandte Wissenschaften / 61 Medizin und Gesundheit / 610 Medizin und Gesundheit
Peer Review:Referiert
Publication Way:Open Access
Licence (German):License LogoCreative Commons - Namensnennung, 4.0 International
Notes extern:Zweitveröffentlichung in der Schriftenreihe Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe ; 477