TY - JOUR
T1 - SynMap2 and SynMap3D
T2 - Web-based whole-genome synteny browsers
AU - Haug-Baltzell, Asher
AU - Stephens, Sean A.
AU - Davey, Sean
AU - Scheidegger, Carlos E.
AU - Lyons, Eric
N1 - Funding Information:
This work has been supported by the National Science Foundation grants [IOS-1339156 and IOS-1444490].
Publisher Copyright:
© 2017 The Author. Published by Oxford University Press. All rights reserved.
PY - 2017/7/15
Y1 - 2017/7/15
N2 - Current synteny visualization tools either focus on small regions of sequence and do not illustrate genome-wide trends, or are complicated to use and create visualizations that are difficult to interpret. To address this challenge, The Comparative Genomics Platform (CoGe) has developed two web-based tools to visualize synteny across whole genomes. SynMap2 and SynMap3D allow researchers to explore whole genome synteny patterns (across two or three genomes, respectively) in responsive, web-based visualization and virtual reality environments. Both tools have access to the extensive CoGe genome database (containing over 30 000 genomes) as well as the option for users to upload their own data. By leveraging modern web technologies there is no installation required, making the tools widely accessible and easy to use.
AB - Current synteny visualization tools either focus on small regions of sequence and do not illustrate genome-wide trends, or are complicated to use and create visualizations that are difficult to interpret. To address this challenge, The Comparative Genomics Platform (CoGe) has developed two web-based tools to visualize synteny across whole genomes. SynMap2 and SynMap3D allow researchers to explore whole genome synteny patterns (across two or three genomes, respectively) in responsive, web-based visualization and virtual reality environments. Both tools have access to the extensive CoGe genome database (containing over 30 000 genomes) as well as the option for users to upload their own data. By leveraging modern web technologies there is no installation required, making the tools widely accessible and easy to use.
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U2 - 10.1093/bioinformatics/btx144
DO - 10.1093/bioinformatics/btx144
M3 - Article
C2 - 28334338
AN - SCOPUS:85024501515
SN - 1367-4803
VL - 33
SP - 2197
EP - 2198
JO - Bioinformatics
JF - Bioinformatics
IS - 14
ER -