Network propagation: a universal amplifier of genetic associations
Biological networks are powerful resources for the discovery of genes and genetic modules
that drive disease. Fundamental to network analysis is the concept that genes underlying the …
that drive disease. Fundamental to network analysis is the concept that genes underlying the …
Network‐based prediction of protein function
Functional annotation of proteins is a fundamental problem in the post‐genomic era. The
recent availability of protein interaction networks for many model species has spurred on the …
recent availability of protein interaction networks for many model species has spurred on the …
[HTML][HTML] A large-scale evaluation of computational protein function prediction
Automated annotation of protein function is challenging. As the number of sequenced
genomes rapidly grows, the overwhelming majority of protein products can only be …
genomes rapidly grows, the overwhelming majority of protein products can only be …
The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens
Abstract Background The Critical Assessment of Functional Annotation (CAFA) is an
ongoing, global, community-driven effort to evaluate and improve the computational …
ongoing, global, community-driven effort to evaluate and improve the computational …
Graph-based prediction of protein-protein interactions with attributed signed graph embedding
Abstract Background Protein-protein interactions (PPIs) are central to many biological
processes. Considering that the experimental methods for identifying PPIs are time …
processes. Considering that the experimental methods for identifying PPIs are time …
DDR: efficient computational method to predict drug–target interactions using graph mining and machine learning approaches
Motivation Finding computationally drug–target interactions (DTIs) is a convenient strategy
to identify new DTIs at low cost with reasonable accuracy. However, the current DTI …
to identify new DTIs at low cost with reasonable accuracy. However, the current DTI …
Exploiting indirect neighbours and topological weight to predict protein function from protein–protein interactions
Motivation: Most approaches in predicting protein function from protein–protein interaction
data utilize the observation that a protein often share functions with proteins that interacts …
data utilize the observation that a protein often share functions with proteins that interacts …
ProLanGO: protein function prediction using neural machine translation based on a recurrent neural network
With the development of next generation sequencing techniques, it is fast and cheap to
determine protein sequences but relatively slow and expensive to extract useful information …
determine protein sequences but relatively slow and expensive to extract useful information …
Uncovering biological network function via graphlet degree signatures
Motivation Proteins are essential macromolecules of life and thus understanding their
function is of great importance. The number of functionally unclassified proteins is large …
function is of great importance. The number of functionally unclassified proteins is large …
Interactome: gateway into systems biology
Protein–protein interactions are fundamental to all biological processes, and a
comprehensive determination of all protein–protein interactions that can take place in an …
comprehensive determination of all protein–protein interactions that can take place in an …