Identifying the Immunological Gene Signatures of Immune Cell Subtypes.
The immune system is a complicated defensive system that comprises multiple functional cells and molecules acting against endogenous and exogenous pathogenic factors. Identifying immune cell subtypes and recognizing their unique immunological functions are difficult because of the complicated cellul...
| Published in: | BioMed Research International pp. 1 - 11 |
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| Main Authors: | , , , , , |
| Format: | equations & formulas research tables/charts Journal Article |
| Published: |
Wiley-Blackwell
2/19/2021
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| Online Access: | View this record in EBSCOhost |
| fields | @attributes: recordID: 1 pdfLink: plink: https://search.ebscohost.com/login.aspx?direct=true&db=ccm&AN=148822214&site=ehost-live header: @attributes: shortDbName: ccm uiTerm: 148822214 longDbName: CINAHL Complete uiTag: AN controlInfo: bkinfo: dissinfo: jinfo: jid: 23146133 FT2T jtl: BioMed Research International issn: 23146133 maglogo: N pubinfo: dt: 2/19/2021 pid: 480 pub: Wiley-Blackwell place: Malden, Massachusetts artinfo: ui: 148822214 148822214 148822214 10.1155/2021/6639698 148822214 ppf: 1 ppct: 10 formats: fmt: @attributes: type: P tig: atl: Identifying the Immunological Gene Signatures of Immune Cell Subtypes. aug: au: Zhang, Yu-Hang Li, Zhandong Zeng, Tao Lu, WenCong Huang, Tao Cai, Yu-Dong affil: School of Life Sciences, Shanghai University, Shanghai 200444, China sug: subj: Lymphocytes Immunology Immune System Gene Expression Profiling Human Sequence Analysis RNA Cell Physiology Immunotherapy Algorithms ab: The immune system is a complicated defensive system that comprises multiple functional cells and molecules acting against endogenous and exogenous pathogenic factors. Identifying immune cell subtypes and recognizing their unique immunological functions are difficult because of the complicated cellular components and immunological functions of the immune system. With the development of transcriptomics and high-throughput sequencing, the gene expression profiling of immune cells can provide a new strategy to explore the immune cell subtyping. On the basis of the new profiling data of mouse immune cell gene expression from the Immunological Genome Project (ImmGen), a novel computational pipeline was applied to identify different immune cell subtypes, including αβ T cells, B cells, γδ T cells, and innate lymphocytes. First, the profiling data was analyzed by a powerful feature selection method, Monte-Carlo Feature Selection, resulting in a feature list and some informative features. For the list, the two-stage incremental feature selection method, incorporating random forest as the classification algorithm, was applied to extract essential gene signatures and build an efficient classifier. On the other hand, a rule learning scheme was applied on the informative features to construct quantitative expression rules. A group of gene signatures was found as qualitatively related to the biological processes of four immune cell subtypes. The quantitative expression rules can efficiently cluster immune cells. This work provides a novel computational tool for immune cell quantitative subtyping and biomarker recognition. pubtype: Academic Journal doctype: equations & formulas research tables/charts Journal Article ougenre: Article language: English refInfo: holdings: @attributes: islocal: N |
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