Comprehensive investigation of pathway enrichment methods for functional interpretation of LC–MS global metabolomics data
Background: Global or untargeted metabolomics is widely used to comprehensively
investigate metabolic profiles under various pathophysiological conditions such as …
investigate metabolic profiles under various pathophysiological conditions such as …
Orchestrating single-cell analysis with Bioconductor
Recent technological advancements have enabled the profiling of a large number of
genome-wide features in individual cells. However, single-cell data present unique …
genome-wide features in individual cells. However, single-cell data present unique …
KOBAS-i: intelligent prioritization and exploratory visualization of biological functions for gene enrichment analysis
Gene set enrichment (GSE) analysis plays an essential role in extracting biological insight
from genome-scale experiments. ORA (overrepresentation analysis), FCS (functional class …
from genome-scale experiments. ORA (overrepresentation analysis), FCS (functional class …
PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data
Single-cell RNA sequencing is an increasingly used method to measure gene expression at
the single cell level and build cell-type atlases of tissues. Hundreds of single-cell …
the single cell level and build cell-type atlases of tissues. Hundreds of single-cell …
Gene set analysis: challenges, opportunities, and future research
Gene set analysis methods are widely used to provide insight into high-throughput gene
expression data. There are many gene set analysis methods available. These methods rely …
expression data. There are many gene set analysis methods available. These methods rely …
ReactomeGSA-efficient multi-omics comparative pathway analysis
Pathway analyses are key methods to analyze 'omics experiments. Nevertheless, integrating
data from different 'omics technologies and different species still requires considerable …
data from different 'omics technologies and different species still requires considerable …
Identifying significantly impacted pathways: a comprehensive review and assessment
Background Many high-throughput experiments compare two phenotypes such as disease
vs. healthy, with the goal of understanding the underlying biological phenomena …
vs. healthy, with the goal of understanding the underlying biological phenomena …
Brain neurotrauma: molecular, neuropsychological, and rehabilitation aspects
FH Kobeissy - 2015 - books.google.com
With the contribution from more than one hundred CNS neurotrauma experts, this book
provides a comprehensive and up-to-date account on the latest developments in the area of …
provides a comprehensive and up-to-date account on the latest developments in the area of …
Methods and approaches in the topology-based analysis of biological pathways
The goal of pathway analysis is to identify the pathways significantly impacted in a given
phenotype. Many current methods are based on algorithms that consider pathways as …
phenotype. Many current methods are based on algorithms that consider pathways as …
Combining multiple tools outperforms individual methods in gene set enrichment analyses
Motivation Gene set enrichment (GSE) analysis allows researchers to efficiently extract
biological insight from long lists of differentially expressed genes by interrogating them at a …
biological insight from long lists of differentially expressed genes by interrogating them at a …