Question: Inferring Gene Regulatory Networks Using Bayesian Inference
2
gravatar for Diana
6.8 years ago by
Diana770
Germany
Diana770 wrote:

Hello everyone,

Does anyone know of any R packages that can be used to infer gene regulatory networks from expression data using Bayesian inference?

Thanks!

R gene-expression • 2.8k views
ADD COMMENTlink modified 6.8 years ago by Nathan Harmston1.1k • written 6.8 years ago by Diana770
2
gravatar for Nathan Harmston
6.8 years ago by
Nathan Harmston1.1k
London
Nathan Harmston1.1k wrote:

if you have a time series, how about GRENITS?

http://www.bioconductor.org/packages/devel/bioc/html/GRENITS.html

or BIRTA?

http://www.bioconductor.org/packages/2.10/bioc/html/birta.html

ADD COMMENTlink modified 6.8 years ago • written 6.8 years ago by Nathan Harmston1.1k

do you have any experience with these, and how well they work?

ADD REPLYlink written 6.8 years ago by Dave Bridges1.3k

Thanks for your answer Nathan. Have you used these packages before? because I have a question regarding the input data. My data has a time series at 3,5 and 7 hrs and each time point has a control and treatment condition and we have 3 replicates of control and treatment experiments at each time point. All data is normalized. Should I use the values of all replicates or mean of the triplicates for building the network? Thanks!

ADD REPLYlink written 6.8 years ago by Diana770
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