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Related Concept Videos

Protein Networks02:26

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Protein Networks02:26

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Genomics02:02

Genomics

Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...

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NetWalker: a contextual network analysis tool for functional genomics.

Kakajan Komurov1, Serkan Dursun, Serkan Erdin

  • 1Division of Experimental Hematology and Cancer Biology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA. Kakajan.Komurov@cchmc.org

BMC Genomics
|June 27, 2012
PubMed
Summary
This summary is machine-generated.

NetWalker is a new software suite for analyzing genomic data with biomolecular networks. It uses novel random walk methods to integrate and interpret complex biological data, offering mechanistic insights.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Functional analysis of genomic data requires integrating experimental results with biomolecular networks.
  • Complexity of biological networks and lack of effective computational methods hinder data integration.

Purpose of the Study:

  • To develop a comprehensive software suite (NetWalker) for network-based analysis of genome-scale data.
  • To provide novel methods for holistic data integration and comparative interpretation within biomolecular networks.

Main Methods:

  • Developed NetWalker, a software suite with novel random walk-based network analysis methods (NetWalk and FunWalk).
  • Implemented holistic data integration assessing entire data distributions without requiring cutoffs.
  • Ensured extensive inter-operability with external applications, including R, for enhanced data analysis flexibility.

Main Results:

  • NetWalker provides a one-stop platform for network-based comparative interpretations of genome-scale data.
  • NetWalk and FunWalk prioritize molecular and functional networks by assessing data distributions and network connectivity.
  • Demonstrated computational analysis of microarray gene expression data from doxorubicin-treated MCF7 cells.

Conclusions:

  • NetWalker offers advanced capabilities for analyzing complex biological networks and experimental data.
  • The software facilitates mechanistic insights through effective integration of genomic data.
  • A detailed tutorial and manual are available at http://netwalkersuite.org.