Gene Expression Networks Two - Complex Networks - Lecture Slides, Slides of Computer Networks

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Gene Expression Networks

• Introduction
• Project Description
• Methodology
• Conclusion
• References

• Plant growth in the natural environment is affected by a number of factors.
• We call these factors stresses.

• Every organism gives different responses to different stresses they are subjected to.
• However generally they are affected adversely by these factors.

• Adapted from http://agdev.anr.udel.edu/weeklycropupdate/?p=

• Because crops have importance in human life, it is a crucial issue to understand the behavior of crops under any stress factors.

• When this behavior is analyzed and obtained it is important and now easy to develop and improve stress tolerance in crops. This has significant implications for people and farmers worldwide.

Methodology

• What will I do during my project?
  • Data collection
    • Plant gene databases
    • Published papers that provide data
  • Implement data as a network and analyse sets of genes that give any response to these stresses separately
  • Apply network metrics

How do researchers provide data?

• Microarray technique for gene expression profiles

DNA Microarrays http://www.youtube.com/watch?v=VNsThMN jKhM

NCBI: National Center for Biotechnology

Information

• The National Center for Biotechnology Information ( NCBI ) is part of the United States National Library of Medicine (NLM), a branch of the National Institutes of Health.

• The NCBI houses genome sequencing data in GenBank and an index of biomedical research articles in PubMed Central and PubMed, as well as other information relevant to biotechnology. All these databases are available online through the Entrez search engine.

Gramene

• Gramene 's purpose is to provide added value to data sets available within the public sector, which will facilitate researchers' ability to understand the grass genomes and take advantage of genomic sequence known in one species for identifying and understanding corresponding genes, pathways and phenotypes in other grass species.
• rice, maize, sorghum, barley, oats, wheat, and rye

• Published papers