Computational Systems Biology Methods and Protocols.7z

Table 5The representative approaches of integrative visualizationMethods

Description

URL

ICM [

108

]

Integrated clustering of multiple types of omics data is essential for

developing individual-based treatments and precision medicine

http:/

/biotech.bmi.ac.cn/icm/

MEXPRESS [

64

]

Offers clinical researchers a simple way to evaluate the TCGA data for

their genes or candidate biomarkers of interest

http:/

/mexpress.be

SteinerNet [

110

]

For researchers who would like to integrate their high-throughput data

for a specific condition or cellular response and to find biologicallymeaningful pathway

http://fraenkel-nsf.csbi.mit.edu/steinernet/

CrossHub [

112

]

The contribution of different mechanisms to the regulation of gene

expression varies for different tissues and tumors

https://sourceforge.net/projects/crosshub/

Anduril [

111

]

To translate the fragmented and heterogeneous datasets into knowledge

http:/

/csbi.ltdk.helsinki.fi/anduril/

Web-TCGA [

68

]

Integrated analysis of molecular cancer datasets provided by TCGA

https:/

/sourceforge.net/projects/webtcga/

Ensembl Genomes [

106

] Participants in a growing range of collaborations involved in the

annotation and analysis of genomes

http:/

/www.ensemblgenomes.org

INMEX [

109

]

Properly combining or integrating the datasets with similar basic

hypotheses can help reduce study bias, increase statistical power, andimprove overall biological understanding

http:/

/www.inmex.ca

cBioPortal [

107

]

To provide a practical guide to the analysis and visualization features of

the cBioPortal for cancer genomics

http:/

/cbioportal.org

Integrative Analysis of Omics Big Data 125