Study of changes in gene co-expression networks

• Grant number: 13/14722-8
• Support Opportunities: Scholarships abroad - Research Internship - Doctorate
• Effective date (Start): September 15, 2013
• Effective date (End): July 22, 2014
• Field of knowledge: Physical Sciences and Mathematics - Probability and Statistics - Applied Probability and Statistics
• Principal Investigator: Anatoli Iambartsev
• Grantee: Lina Dornelas Thomas
• Supervisor: Andriy Morgun
• Host Institution: Instituto de Matemática e Estatística (IME). Universidade de São Paulo (USP). São Paulo , SP, Brazil
• Research place: Oregon State University (OSU), United States
• Associated to the scholarship: 13/06223-1 - New statistical inferences exploring causal changes in biological networks, BP.DR

Abstract

The main goal of this project is the same as in the PhD project which is to understand how a biological system transitions from one state to another through studying the dynamics of reconstructed gene expression networks. From a starting point we are going to analyze two different biological models. The first one is about the effect of the immune system in the homeostatic functions of the intestinal epithelium and the second one deals with cervical cancer. The work has already been started with data from the first model. The results achieved are quite consistent with what we know about the functioning of the immune system. In both studies, it is necessary to make a heavy analysis with gene expression data of around 1000 databases. For this, large computational resources such as computer cluster at the Center for Genomic Research and Biocomputing (CGRB) at Oregon State University (OSU) can improve and accelerate the research. In addition, at OSU we can count with a trans-disciplinary team of professionals from many different areas and labs, which will intensify and diversify the knowledge of the candidate through seminars, conferences and journal clubs. (AU)

Scientific publications

(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)

DONG, XIAOXI; YAMBARTSEV, ANATOLY; RAMSEY, STEPHEN A.; THOMAS, LINA D.; SHULZHENKO, NATALIA; MORGUN, ANDREY. Reverse enGENEering of Regulatory Networks from Big Data: A Road map for Biologists. BIOINFORMATICS AND BIOLOGY INSIGHTS, v. 9, p. 61-74, 2015. (13/06223-1, 13/14722-8)