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GenomeView: a next-generation genome browser

Thomas Abeel UGent, Thomas Van Parys UGent, Yvan Saeys UGent, James Galagan and Yves Van de Peer UGent (2012) NUCLEIC ACIDS RESEARCH. 40(2).
abstract
Due to ongoing advances in sequencing technologies, billions of nucleotide sequences are now produced on a daily basis. A major challenge is to visualize these data for further downstream analysis. To this end, we present GenomeView, a stand-alone genome browser specifically designed to visualize and manipulate a multitude of genomics data. GenomeView enables users to dynamically browse high volumes of aligned short-read data, with dynamic navigation and semantic zooming, from the whole genome level to the single nucleotide. At the same time, the tool enables visualization of whole genome alignments of dozens of genomes relative to a reference sequence. GenomeView is unique in its capability to interactively handle huge data sets consisting of tens of aligned genomes, thousands of annotation features and millions of mapped short reads both as viewer and editor. GenomeView is freely available as an open source software package.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
TECHNOLOGIES, TRANSCRIPTOME, GENE, VISUALIZATION, DESK-TOP COMPUTER, SEQUENCE, CHALLENGES, RESOLUTION, ALIGNMENT, VIEWER
journal title
NUCLEIC ACIDS RESEARCH
Nucleic Acids Res.
volume
40
issue
2
article_number
e12
pages
10 pages
Web of Science type
Article
Web of Science id
000299095900003
JCR category
BIOCHEMISTRY & MOLECULAR BIOLOGY
JCR impact factor
8.278 (2012)
JCR rank
27/288 (2012)
JCR quartile
1 (2012)
ISSN
0305-1048
DOI
10.1093/nar/gkr995
project
Bioinformatics: from nucleotids to networks (N2N)
language
English
UGent publication?
yes
classification
A1
copyright statement
I have retained and own the full copyright for this publication
id
2042297
handle
http://hdl.handle.net/1854/LU-2042297
date created
2012-02-23 13:46:37
date last changed
2013-05-06 11:09:55
@article{2042297,
  abstract     = {Due to ongoing advances in sequencing technologies, billions of nucleotide sequences are now produced on a daily basis. A major challenge is to visualize these data for further downstream analysis. To this end, we present GenomeView, a stand-alone genome browser specifically designed to visualize and manipulate a multitude of genomics data. GenomeView enables users to dynamically browse high volumes of aligned short-read data, with dynamic navigation and semantic zooming, from the whole genome level to the single nucleotide. At the same time, the tool enables visualization of whole genome alignments of dozens of genomes relative to a reference sequence. GenomeView is unique in its capability to interactively handle huge data sets consisting of tens of aligned genomes, thousands of annotation features and millions of mapped short reads both as viewer and editor. GenomeView is freely available as an open source software package.},
  articleno    = {e12},
  author       = {Abeel, Thomas and Van Parys, Thomas and Saeys, Yvan and Galagan, James and Van de Peer, Yves},
  issn         = {0305-1048},
  journal      = {NUCLEIC ACIDS RESEARCH},
  keyword      = {TECHNOLOGIES,TRANSCRIPTOME,GENE,VISUALIZATION,DESK-TOP COMPUTER,SEQUENCE,CHALLENGES,RESOLUTION,ALIGNMENT,VIEWER},
  language     = {eng},
  number       = {2},
  pages        = {10},
  title        = {GenomeView: a next-generation genome browser},
  url          = {http://dx.doi.org/10.1093/nar/gkr995},
  volume       = {40},
  year         = {2012},
}

Chicago
Abeel, Thomas, Thomas Van Parys, Yvan Saeys, James Galagan, and Yves Van de Peer. 2012. “GenomeView: a Next-generation Genome Browser.” Nucleic Acids Research 40 (2).
APA
Abeel, T., Van Parys, T., Saeys, Y., Galagan, J., & Van de Peer, Y. (2012). GenomeView: a next-generation genome browser. NUCLEIC ACIDS RESEARCH, 40(2).
Vancouver
1.
Abeel T, Van Parys T, Saeys Y, Galagan J, Van de Peer Y. GenomeView: a next-generation genome browser. NUCLEIC ACIDS RESEARCH. 2012;40(2).
MLA
Abeel, Thomas, Thomas Van Parys, Yvan Saeys, et al. “GenomeView: a Next-generation Genome Browser.” NUCLEIC ACIDS RESEARCH 40.2 (2012): n. pag. Print.