机器学习识别单细胞转录水平上胎儿视网膜发育相关的关键基因标记。

IF 4.7 2区 医学 Q1 OPHTHALMOLOGY
Jiyu Zhang, Tong Du, Yiqing Jin, Yusheng Bao, Qinglan Ma, Yu-Dong Cai, Jian Zhang
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引用次数: 0

摘要

目的:视网膜是中枢神经系统的一部分,其功能是视觉。在胎儿的胚胎发育过程中,它从视网膜祖细胞分化出七种主要类型的细胞。本研究的目的是研究胎儿视网膜发育所必需的基本特征。方法:我们利用来自陈扎克伯格倡议的人类胎儿视网膜单细胞生物学收集的数据集,生成了一个全面的人类视网膜单细胞转录图谱。研究了8种关键类型的视网膜细胞,包括无突细胞、双极细胞、锥体细胞、水平细胞、 ller胶质细胞、视网膜神经节细胞、杆状细胞和视网膜祖细胞。我们评估了每种细胞类型在三个发育阶段(早期、中期和晚期)的36,503个基因特征。采用7种特征排序算法和增量特征选择方法,识别关键基因特征,构建高效分类器和分类规则。结果:对于无痤疮细胞,RELN和DAB1起关键作用;双极细胞为ANK3和RIMS2;视锥细胞为PDE6H和FRMPD2;水平细胞为NFIA;勒胶质细胞为WIF1和TF;视网膜神经节细胞为IL1RAPL2和PCP4;杆状细胞为RIMS2和NRG1;视网膜祖细胞为BTG1。这些基因特征使人们对视网膜细胞的基因调控模式和发育途径有了更深入的了解。结论:本研究探索了与胎儿视网膜发育相关的分子特征及其在某些通路中的潜在作用,这可能为视网膜发育提供新的见解,并有助于更好地了解其他视网膜疾病。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Machine Learning Identifies Key Gene Markers Related to Fetal Retina Development at Single-Cell Transcription Level.

Purpose: The retina is part of the central nervous system, and its function is vision. During the embryonic development of the fetus, it diversifies the seven major types of cells from a retinal progenitor cell. The purpose of this study is to investigate essential features that are necessary for the development of the fetal retina.

Methods: We generated a comprehensive single-cell transcriptional atlas of the human retina by leveraging datasets from the Chan Zuckerberg Initiative Single-Cell Biology collection of human fetal retinas. The eight critical types of retinal cells were investigated, including amacrine, bipolar, cone, horizontal, Müller glia, retinal ganglion, rod, and retinal progenitor cells. We evaluated a total of 36,503 gene features across three developmental stages (early, middle, and late) for each cell type. Using seven feature ranking algorithms and incremental feature selection method, we identified key gene features, constructed efficient classifiers and classification rules.

Results: For amacrine cells, RELN and DAB1 are critical; for bipolar cells, ANK3 and RIMS2; for cone cells, PDE6H and FRMPD2; for horizontal cells, NFIA; for Müller glial cells, WIF1 and TF; for retinal ganglion cells, IL1RAPL2 and PCP4; for rod cells, RIMS2 and NRG1; and for retinal progenitor cells, BTG1. These gene features bring into focus the pattern of gene regulation and developmental pathways of the retinal cells for deeper insights into retinal development.

Conclusions: This study explored molecular features related to the development of the fetal retina and their potential roles in certain pathways, which may provide novel insights into retinal development and contribute to a better understanding of other retinal diseases.

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来源期刊
CiteScore
6.90
自引率
4.50%
发文量
339
审稿时长
1 months
期刊介绍: Investigative Ophthalmology & Visual Science (IOVS), published as ready online, is a peer-reviewed academic journal of the Association for Research in Vision and Ophthalmology (ARVO). IOVS features original research, mostly pertaining to clinical and laboratory ophthalmology and vision research in general.
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