Title :
Inference of gene-regulatory networks using message-passing algorithms
Author :
Shamaiah, Manohar ; Lee, Sang Hyun ; Vikalo, Haris
Author_Institution :
Dept. of ECE, Univ. of Texas at Austin, Austin, TX, USA
Abstract :
We present an application of message-passing techniques to gene regulatory network inference. The network inference is posed as a constrained linear regression problem, and solved by a distributed computationally efficient message-passing algorithm. Performance of the proposed algorithm is tested on gold standard data sets and evaluated using metrics provided by the DREAM2 challenge. Performance of the proposed algorithm is comparable to that of the techniques which yielded the best results in the DREAM2 challenge competition.
Keywords :
biology computing; complex networks; genetics; message passing; molecular biophysics; regression analysis; DREAM2 challenge; computationally efficient message passing algorithm; constrained linear regression problem; distributed message passing algorithm; gene regulatory network; network inference; Data models; Gene expression; Graphical models; Inference algorithms; Mathematical model; Message passing; Optimization; Gene regulatory networks; L1-regularized model; Message passing algorithms;
Conference_Titel :
Genomic Signal Processing and Statistics (GENSIPS), 2010 IEEE International Workshop on
Conference_Location :
Cold Spring Harbor, NY
Print_ISBN :
978-1-61284-791-7
DOI :
10.1109/GENSIPS.2010.5719683