How to integrate microarray data and proteomic data?

Question

[BioMed]

Dear all,

We have microarray data from a previous work. In the current project, we conducted the proteomic analysis. However, we want to integrate microarray and proteomic data. Please give me your suggestion methods and tools.

Thank you very much.

[WouterDeCoster]

Some questions: What result do you seek to obtain? Which biological question do you want to answer? How is your experimental setup?

Answer 1

[natasha.sernova]

There are a lot of papers from 2006-2008, I think they are rather old.

I was looking for some relatively new papers: Look at them. Most ones describe some tools:

Integrated Analysis of Transcriptomic and Proteomic Data, 2013

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3637682/

Integration of genomic, transcriptomic and proteomic data identifies two biologically distinct subtypes of invasive lobular breast cancer, 2015

http://www.nature.com/articles/srep18517

Transcriptomic and Proteomic Data Integration and Two-Dimensional Molecular Maps with Regulatory and Functional Linkages: Application to Cell Proliferation and Invasion Networks in Glioblastoma

http://pubs.acs.org/doi/abs/10.1021/acs.jproteome.5b00765?journalCode=jprobs

Multiple-platform data integration method with application to combined analysis of microarray and proteomic data, 2012

http://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-13-320

Chipster: user-friendly analysis software for microarray and other high-throughput data, 2011

http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-12-507

GenomeSpace Tools and Data Sources

http://www.genomespace.org/support/tools