Incorporating prior knowledge into Gene Network Study

Regularization Paths for Generalized Linear Models via Coordinate Descent

(2015) Jerome Friedman et al.   Journal of Statistical Software

TREEGL: reverse engineering tree-evolving gene networks underlying developing biological lineages

(2011) A. P. Parikh et al.   BIOINFORMATICS

Identifying cancer biomarkers by network-constrained support vector machines

(2011) Li Chen et al.   BMC Systems Biology

Integrated genomic analyses of ovarian carcinoma

(2011) D. Bell et al.   NATURE

Identifying differentially expressed genes in cancer patients using a non-parameter Ising model

(2011) Xumeng Li et al.   PROTEOMICS

Qualitative reasoning of dynamic gene regulatory interactions from gene expression data

(2010) Yu Chen et al.   BMC GENOMICS

Pathway Commons, a web resource for biological pathway data

(2010) E. G. Cerami et al.   NUCLEIC ACIDS RESEARCH

Regularized estimation of large-scale gene association networks using graphical Gaussian models

(2009) Nicole Krämer et al.   BMC BIOINFORMATICS

KEGG for representation and analysis of molecular networks involving diseases and drugs

(2009) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Network-constrained regularization and variable selection for analysis of genomic data

(2008) C. Li et al.   BIOINFORMATICS

Insulin-Like Growth Factor-I Activates Gene Transcription Programs Strongly Associated With Poor Breast Cancer Prognosis

(2008) Chad J. Creighton et al.   JOURNAL OF CLINICAL ONCOLOGY