Please use this identifier to cite or link to this item: https://hdl.handle.net/10356/85842
Title: NetLand: quantitative modeling and visualization of Waddington’s epigenetic landscape using probabilistic potential
Authors: Guo, Jing
Lin, Feng
Zhang, Xiaomeng
Tanavde, Vivek
Zheng, Jie
Issue Date: 2017
Source: Guo, J., Lin, F., Zhang, X., Tanavde, V.,& Zheng, J. NetLand: quantitative modeling and visualization of Waddington’s epigenetic landscape using probabilistic potential. Bioinformatics, btx022-.
Series/Report no.: Bioinformatics
Abstract: Summary: Waddington’s epigenetic landscape is a powerful metaphor for cellular dynamics driven by gene regulatory networks (GRNs). Its quantitative modeling and visualization, however, remains a challenge, especially when there are more than two genes in the network. A software tool for Waddington’s landscape has not been available in the literature. We present NetLand, an open-source software tool for modeling and simulating the kinetic dynamics of GRNs, and visualizing the corresponding Waddington’s epigenetic landscape in three dimensions without restriction on the number of genes in a GRN. With an interactive and graphical user interface, NetLand can facilitate the knowledge discovery and experimental design in the study of cell fate regulation (e.g. stem cell differentiation and reprogramming). Availability and Implementation: NetLand can run under operating systems including Windows, Linux and OS X. The executive files and source code of NetLand as well as a user manual, example models etc. can be downloaded from http://netland-ntu.github.io/NetLand/.
URI: https://hdl.handle.net/10356/85842
http://hdl.handle.net/10220/43851
ISSN: 1367-4803
DOI: 10.1093/bioinformatics/btx022
DOI (Related Dataset): https://doi.org/10.21979/N9/IP6DBD
Schools: School of Computer Science and Engineering 
Research Centres: Complexity Institute 
Rights: © The Author 2017. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
Fulltext Permission: open
Fulltext Availability: With Fulltext
Appears in Collections:SCSE Journal Articles

SCOPUSTM   
Citations 20

17
Updated on Mar 13, 2024

Web of ScienceTM
Citations 20

15
Updated on Oct 27, 2023

Page view(s) 50

569
Updated on Mar 18, 2024

Download(s) 50

117
Updated on Mar 18, 2024

Google ScholarTM

Check

Altmetric


Plumx

Items in DR-NTU are protected by copyright, with all rights reserved, unless otherwise indicated.