Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1268037 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR33701022_1.fastq.gz | Fastqsanger.gz | |||
| SRR33701022_2.fastq.gz | Fastqsanger.gz | |||
| SRR33701023_1.fastq.gz | Fastqsanger.gz | |||
| SRR33701023_2.fastq.gz | Fastqsanger.gz | |||
| SRR33701024_1.fastq.gz | Fastqsanger.gz |
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Project description:Microbe associated molecular pattern (MAMP)-triggered immunity (MTI) is an important component of the plant innate immunity response to invading pathogens. Although several MTI responses can be measured in different plant species, their magnitude is likely plant-species specific and even cultivar specific. In this work, we show that the variation in gene expression, either under untreated or treated conditions, is inherited. In addition, genes with potential additive and non-additive effects were identified in two mapping lines, several of these with a potential function in the control of the innate immunity. Likewise, we observed that some genes differentially expressed across the parental and mapping lines showed different DNA methylation patterns. Finally, a gene regulatory module analysis identified key networks that likely control soybean innate immunity. The data presented represent the basis for further functional analysis that can lead to a better understanding of the soybean innate immunity response. RNA-Seq data collected from Glycine max leaves treated with MAMPs of two parental lines of a RIL population and two individual RILs.
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Created by COPASI 4.25 (Build 207)
This model is described in the article:
The Role of the Innate Immune System in Oncolytic Virotherapy
Tuan Anh Phan and Jianjun Paul Tian
Computational and Mathematical Methods in Medicine (2017) 6587258
Abstract:
The complexity of the immune responses is a major challenge in current virotherapy. This study incorporates the innate immune response into our basic model for virotherapy and investigates how the innate immunity affects the outcome of virotherapy. The viral therapeutic dynamics is largely determined by the viral burst size, relative innate immune killing rate, and relative innate immunity decay rate. The innate immunity may complicate virotherapy in the way of creating more equilibria when the viral burst size is not too big, while the dynamics is similar to the system without innate immunity when the viral burst size is big.
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To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide.
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2024-09-02 | BIOMD0000000748 | BioModels
Project description:Transcriptomic innate immunity subtypes
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Project description:Monocyte differentiation into macrophages represents one of the cornerstone processes in innate host defense. In addition, immunological imprinting of either tolerance or trained immunity after an initial infection determines the functional fate of innate immune cells and the susceptibility of the host to secondary infections. Here we comprehensively characterize the epigenetic profiles of these functional states relative to healthy adult naM-CM-/ve monocytes. Inflammatory and metabolic pathways are strongly modulated in the derived macrophages, including decreased activation of inflammasome components. The cAMP-dependent signaling pathway is remodeled and adrenergic signaling was functionally implicated in trained innate immunity induction in vivo. Interestingly, M-oM-^AM-"-Glucan trains innate immune cells through extensive remodeling of distal regulatory region-bound histone acetylation, resulting in a sizeable exclusive epigenomic signature. Accordingly, genome-wide transcription factor footprint analysis reveals a specific transcription factor repertoire at trained cell-specific enhancers when recouped with epigenetic data, forming a rich hypothesis generator to manipulate innate immunity. Monocytes were pre-incubated either with cell culture medium (RPMI), M-NM-2-glucan (5M-BM-5g/mL) or with LPS (100ng/mL), for 24 hours in a total volume of 10 mL. After a wash-out, cells were cultured in RPMI supplemented with 10% human pool serum. Monocytes were collected at different time points (0 h and 6 d after treatment) and counted before further treatment for chromatin immunoprecipitation, RNA or DNaseI treatment. Different donor Buffycoats (BC) were used as independent replicates. Replicates were generated for all the profiles including ChIPseq,RNAseq and DNaseIseq.
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