Predicting the role of the human gut microbiome in type 1 diabetes using machine-learning methods

生物 肠道菌群 微生物群 小桶 计算生物学 生物标志物 人体微生物群 遗传学 生物信息学 转录组 基因 生物化学 基因表达
作者
Xiaowei Liu,Hanlin Li,Cai-Yi Ma,Tianyu Shi,Tianyu Wang,Dan Yan,Hua Tang,Hao Lin,Kejun Deng
出处
期刊:Briefings in Functional Genomics [Oxford University Press]
卷期号:23 (4): 464-474 被引量:7
标识
DOI:10.1093/bfgp/elae004
摘要

Abstract Gut microbes is a crucial factor in the pathogenesis of type 1 diabetes (T1D). However, it is still unclear which gut microbiota are the key factors affecting T1D and their influence on the development and progression of the disease. To fill these knowledge gaps, we constructed a model to find biomarker from gut microbiota in patients with T1D. We first identified microbial markers using Linear discriminant analysis Effect Size (LEfSe) and random forest (RF) methods. Furthermore, by constructing co-occurrence networks for gut microbes in T1D, we aimed to reveal all gut microbial interactions as well as major beneficial and pathogenic bacteria in healthy populations and type 1 diabetic patients. Finally, PICRUST2 was used to predict Kyoto Encyclopedia of Genes and Genomes (KEGG) functional pathways and KO gene levels of microbial markers to investigate the biological role. Our study revealed that 21 identified microbial genera are important biomarker for T1D. Their AUC values are 0.962 and 0.745 on discovery set and validation set. Functional analysis showed that 10 microbial genera were significantly positively associated with D-arginine and D-ornithine metabolism, spliceosome in transcription, steroid hormone biosynthesis and glycosaminoglycan degradation. These genera were significantly negatively correlated with steroid biosynthesis, cyanoamino acid metabolism and drug metabolism. The other 11 genera displayed an inverse correlation. In summary, our research identified a comprehensive set of T1D gut biomarkers with universal applicability and have revealed the biological consequences of alterations in gut microbiota and their interplay. These findings offer significant prospects for individualized management and treatment of T1D.
最长约 10秒,即可获得该文献文件

科研通智能强力驱动
Strongly Powered by AbleSci AI
更新
PDF的下载单位、IP信息已删除 (2025-6-4)

科研通是完全免费的文献互助平台,具备全网最快的应助速度,最高的求助完成率。 对每一个文献求助,科研通都将尽心尽力,给求助人一个满意的交代。
实时播报
墨痕mohen完成签到,获得积分10
刚刚
Muhi完成签到,获得积分10
刚刚
刚刚
自带蓝牙的土豆完成签到 ,获得积分10
1秒前
青羽落霞完成签到 ,获得积分10
2秒前
抹颜完成签到,获得积分10
3秒前
量子星尘发布了新的文献求助10
7秒前
胡图图完成签到,获得积分10
8秒前
睡觉大王完成签到 ,获得积分10
9秒前
10秒前
10秒前
11秒前
11秒前
16秒前
玩命的十三完成签到 ,获得积分10
16秒前
寂寞的诗云完成签到,获得积分10
18秒前
我爱科研完成签到 ,获得积分10
18秒前
19秒前
Bin_Liu发布了新的文献求助10
20秒前
She完成签到,获得积分10
20秒前
23秒前
Raki完成签到,获得积分10
24秒前
22完成签到 ,获得积分10
24秒前
Echo_1995完成签到,获得积分10
27秒前
徐慕源完成签到,获得积分10
27秒前
able发布了新的文献求助10
28秒前
呜呜完成签到 ,获得积分10
29秒前
29秒前
CQ完成签到 ,获得积分10
30秒前
漂亮天真完成签到,获得积分10
31秒前
gmc完成签到 ,获得积分10
31秒前
怡然白竹完成签到 ,获得积分10
33秒前
懵懂的海露完成签到,获得积分10
37秒前
testz完成签到,获得积分10
39秒前
40秒前
一一一完成签到,获得积分10
43秒前
翊然甜周完成签到,获得积分10
43秒前
43秒前
zdnn完成签到,获得积分10
45秒前
TLDX发布了新的文献求助10
48秒前
高分求助中
【提示信息,请勿应助】关于scihub 10000
Les Mantodea de Guyane: Insecta, Polyneoptera [The Mantids of French Guiana] 3000
徐淮辽南地区新元古代叠层石及生物地层 3000
The Mother of All Tableaux: Order, Equivalence, and Geometry in the Large-scale Structure of Optimality Theory 3000
Handbook of Industrial Diamonds.Vol2 1100
Global Eyelash Assessment scale (GEA) 1000
Picture Books with Same-sex Parented Families: Unintentional Censorship 550
热门求助领域 (近24小时)
化学 材料科学 医学 生物 工程类 有机化学 生物化学 物理 内科学 纳米技术 计算机科学 化学工程 复合材料 遗传学 基因 物理化学 催化作用 冶金 细胞生物学 免疫学
热门帖子
关注 科研通微信公众号,转发送积分 4038184
求助须知:如何正确求助?哪些是违规求助? 3575908
关于积分的说明 11373872
捐赠科研通 3305715
什么是DOI,文献DOI怎么找? 1819255
邀请新用户注册赠送积分活动 892662
科研通“疑难数据库(出版商)”最低求助积分说明 815022