iPINBPA: an integrative network-based functional module discovery tool for genome-wide association studies
L Wang, P Mousavi, SE Baranzini - Pacific Symposium on …, 2014 - World Scientific
We introduce the integrative protein-interaction-network-based pathway analysis (iPINBPA)
for genome-wide association studies (GWAS), a method to identify and prioritize genetic …
for genome-wide association studies (GWAS), a method to identify and prioritize genetic …
Enriching human interactome with functional mutations to detect high-impact network modules underlying complex diseases
Rapid progress in high-throughput-omics technologies moves us one step closer to the
datacalypse in life sciences. In spite of the already generated volumes of data, our …
datacalypse in life sciences. In spite of the already generated volumes of data, our …
SigMod: an exact and efficient method to identify a strongly interconnected disease-associated module in a gene network
Motivation Apart from single marker-based tests classically used in genome-wide
association studies (GWAS), network-assisted analysis has become a promising approach …
association studies (GWAS), network-assisted analysis has become a promising approach …
dmGWAS: dense module searching for genome-wide association studies in protein–protein interaction networks
Motivation: An important question that has emerged from the recent success of genome-
wide association studies (GWAS) is how to detect genetic signals beyond single …
wide association studies (GWAS) is how to detect genetic signals beyond single …
[HTML][HTML] pathfindR: an R package for comprehensive identification of enriched pathways in omics data through active subnetworks
Pathway analysis is often the first choice for studying the mechanisms underlying a
phenotype. However, conventional methods for pathway analysis do not take into account …
phenotype. However, conventional methods for pathway analysis do not take into account …
What Do We Learn from Network-Based Analysis of Genome-Wide Association Data?
M Ayati, S Erten, M Koyutürk - … 2014, Granada, Spain, April 23-25, 2014 …, 2014 - Springer
Network based analyses are commonly used as powerful tools to interpret the findings of
genome-wide association studies (GWAS) in a functional context. In particular, identification …
genome-wide association studies (GWAS) in a functional context. In particular, identification …
Differential network analysis of human tissue interactomes highlights tissue-selective processes and genetic disorder genes
O Basha, CM Argov, R Artzy, Y Zoabi, I Hekselman… - bioRxiv, 2019 - biorxiv.org
Motivation Differential network analysis, designed to highlight interaction changes between
conditions, is an important paradigm in network biology. However, network analysis …
conditions, is an important paradigm in network biology. However, network analysis …
Shortest paths ranking methodology to identify alterations in PPI networks of complex diseases
Complex diseases are commonly caused by a combination of genetic alterations in several
genes, which lead to abnormal propagation of signals along biological pathways. Assuming …
genes, which lead to abnormal propagation of signals along biological pathways. Assuming …
EW_dmGWAS: edge-weighted dense module search for genome-wide association studies and gene expression profiles
We previously developed dmGWAS to search for dense modules in a human protein–
protein interaction (PPI) network; it has since become a popular tool for network-assisted …
protein interaction (PPI) network; it has since become a popular tool for network-assisted …