| 研究課題/領域番号 |
26830135
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| 研究機関 | 東京大学 |
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研究代表者 |
PATIL Ashwini 東京大学, 医科学研究所, 講師 (30572193)
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| 研究期間 (年度) |
2014-04-01 – 2016-03-31
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| キーワード | 遺伝子ネットワーク / 自然免疫 / 免疫シグナル伝達 |
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| 研究実績の概要 |
The goal of this project is to identify the differences in the responses triggered by the mammalian innate immune system to various pathogens. The project consists of the collection of gene expression profiles from immune cells exposed to various pathogenic components. This is followed by generation of gene response networks using an in-house computational pathway prediction algorithm (TimeXNet) and development of computational methods to compare these response networks to identify the components that differ for each pathogen.
Using this methodology, I have been able to identify gene response networks for pathogens binding to TLR2, TLR3, TLR4, TLR7 and TLR9. I have developed a computational method based on the concept of "differential interaction networks" to identify the sets of regulators that differ in the responses cytoplasmic (TLR2, TLR4) and the endosomal (TLR3, TLR7, TLR9) receptors, and further identify differences within each type of receptor.
During this time, I have also made TimeXNet publicly available as a stand-alone Java program (Patil & Nakai, BMC Systems Biol. 2014).
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| 現在までの達成度 (区分) |
現在までの達成度 (区分)
2: おおむね順調に進展している
理由
The research is progressing as planned:
1. I have identified the experimental data sets monitoring gene expression changes for pathogenic response of 5 Toll-like receptors.
2. I have prepared the gene response networks for each TLR using TimeXNet based on the gene expression profiles.
3. I have developed a computational methodology to compare the response networks.
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| 今後の研究の推進方策 |
During the coming year (2015-2016), I plan to do the following:
1. Identify specific regulatory genes that show differing responses in the 5 TLR response pathways. This is complicated by the fact that all the TLRs trigger a large number of common regulators.
2. Identify components and pathways that these pathogen-specific genes function in to answer specific questions like how do different TLRs induce control of infection, are multiple TLRs activated for a pathogenic response, etc.
4. If possible, experimentally validate findings with the help of collaborating experimental biologists.
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| 次年度使用額が生じた理由 |
A small amount of the grant was remaining this fiscal year because I received a discount in the publication fees charged by BMC Systems Biology as a result of submitting my paper as part of a conference supplement.
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| 次年度使用額の使用計画 |
I will use this amount in the open access publication charges for the manuscript that I intend to publish in the coming year.
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| 備考 |
This website provides public access to a Java application to run the TimeXNet algorithm to identify cellular response networks using gene expression profiles and a molecular interaction network.
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