Tool stats & trends
Looking to identify usage trends or leading experts?
|Alternative name||Gene eXpression Network Analysis|
|Interface||Command line interface|
|Restrictions to use||None|
|Input data||An expression and a phenotype file, an interaction graph, and an annotation file.|
|Operating system||Unix/Linux, Mac OS, Windows|
|Source code URL||http://statweb.stanford.edu/~serban/gxna/src/|
No version available
- person_outline Serban Nacu
Publication for Gene eXpression Network Analysis
On the performance of de novo pathway enrichment
[…] ental data. (d) GiGA is another score propagation method that first computes local minima to serve as starting points for iteratively building sub-networks with n members and a maximal rank of m. (e) GXNA is a score propagation method that selects random nodes as seeds of candidate sub-networks. These are iteratively extended by adding the neighboring node with the highest score. (f) KPM is anothe […]
Differentially Expressed Transcripts and Dysregulated Signaling Pathways and Networks in African American Breast Cancer
[…] d CA BRCa patients using DESeq; secondly, pathway analysis and gene set enrichment analysis with the Pathway Interaction Database (PID) and Gene Set Enrichment Analysis (GSEA) was performed; thirdly, Gene Expression Network Analysis (GXNA) was used to identify differentially expressed subnetworks; finally, patients were stratified to study differences in stage- or subtype-specific gene expression […]
Predicting In Silico Which Mixtures of the Natural Products of Plants Might Most Effectively Kill Human Leukemia Cells?
[…] icted binding proteins related to cancer; Am was the number of predicted binding proteins related to AML; Ah was the number of predicted binding proteins detected as hubs in interaction networks from gene-expression network analysis; comm was the number of common target protein(s) shared by constituent drugs in combination; sp was the specificity score defined as (the number of cancer-related pred […]
PRC2/EED EZH2 Complex Is Up Regulated in Breast Cancer Lymph Node Metastasis Compared to Primary Tumor and Correlates with Tumor Proliferation In Situ
[…] To capture subtle yet biologically important changes, the Gene eXpression Network Analysis (GXNA) program was used to determine significantly changed networks/subnetworks between lymph node metastasis and primary tumor. This produced a network of thirty-one genes with a significant score of […]
Classification and biomarker identification using gene network modules and support vector machines
[…] termined to be linked. In applying this approach one thousand genes selected by t-test from a training set are first filtered so that the only genes that map to the gene networks database remain. The Gene Expression Network Analysis Tool (GXNA, ) is applied to these genes to form n clusters of genes that are highly connected in the network. Linear SVM is used to classify the samples using these […]
Looking to check out a full list of citations?
Be the first to review GXNA