Microbiome meta-analysis and cross-disease comparison enabled by the SIAMCAT machine learning toolbox

Table 1 Overview of diseases and datasets included in the ML meta-analysis

Disease	Disease abbr.	Datasets	Data type
Ankylosing spondylitis	AS	[7]	Shotgun
Rheumatoid arthritis	ART	[25]	16S rRNA
Rheumatoid arthritis	ART	[6]	Shotgun
Type 1 diabetes	T1D	[26]	16S rRNA
Crohn’s disease	CD	[5, 27,28,29,30]	Shotgun
Ulcerative colitis	UC	[5, 27, 30]	Shotgun
Inflammatory bowel disease	IBD	[4, 31,32,33]	16S rRNA
Colorectal cancer	CRC	[8, 34,35,36,37,38,39]	Shotgun
Colorectal cancer	CRC	[8, 40,41,42]	16S rRNA
Advanced colorectal adenoma(s)	ADA	[8, 34, 38, 39]	Shotgun
Atherosclerotic cardiovascular disease	ACVD	[43]	Shotgun
Hypertension Pre-hypertension	HT pHT	[44]	Shotgun
Clostridioides difficile infection	CDI	[45, 46]	16S rRNA
Enteric diarrheal disease	EDD	[47]	16S rRNA
HIV infection	HIV	[48,49,50]	16S rRNA
Liver cirrhosis	LIV	[51]	Shotgun
Liver cirrhosis	LIV	[52]	16S rRNA
Non-alcoholic fatty liver disease	NAFLD	[53, 54]	Shotgun
Non-alcoholic fatty liver disease	NAFLD	[55, 56]	16S rRNA
Parkinson’s disease	PAR	[57]	Shotgun
Parkinson’s disease	PAR	[58]	16S rRNA
Autism spectrum disorder	ASD	[59, 60]	16S rRNA
Obesity	OB	[61]	Shotgun
Obesity	OB	[62,63,64,65]	16S rRNA
Metabolic syndrome	MS	[66]	Shotgun
Type 2 diabetes	T2D	[67, 68]	Shotgun
Impaired glucose tolerance	IGT	[67]	Shotgun

ISSN: 1474-760X