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. 2023 May 23;26(6):106960. doi: 10.1016/j.isci.2023.106960

REAGENT or RESOURCE	SOURCE	IDENTIFIER
Bacterial strains

Bacteroides cellulosilyticus	Isolated from fecal samples of healthy donors as reported previously	https://doi.org/10.1038/s41587-018-0008-8
Faecalibacterium longum	Isolated from fecal samples of healthy donors as reported previously	https://doi.org/10.1038/s41587-018-0008-8
Roseburia intestinalis	Isolated from fecal samples of healthy donors as reported previously	https://doi.org/10.1038/s41587-018-0008-8

Critical commercial assays

Oil red O staining	Servicebio, Wuhan, China	#G1016
Oil red O staining	Servicebio, Wuhan, China	#G1004
Hematoxylin and eosin staining	Servicebio, Wuhan, China	#G1003
Masson staining	Servicebio, Wuhan, China	#G1006
Total cholesterol	Rayto, ShenZhen, China	#S03042
Triglycerides	Rayto, ShenZhen, China	#S03027
Low-density lipoprotein cholesterol	Rayto, ShenZhen, China	#S03029
High-density lipoprotein cholesterol	Rayto, ShenZhen, China	#S03025
Glucose	Rayto, ShenZhen, China	#S03039

Deposited data

Raw and analyzed data	This paper	Available at CNSA (https://db.cngb.org/cnsa/) of (CNGB) database under the accession code CNP0002026
Raw and analyzed data from the ACVD cohort and large scale healthy cohort	(Jie et al.⁵), (Jie et al., 2022)⁶³	Available at CNSA (https://db.cngb.org/cnsa/) of (CNGB) database under the accession code CNP0000426, CNP0000289

Software and algorithms

ImageJ®	https://doi.org/10.1038/nmeth.2089	https://ImageJ.nih.gov/ij/
R Studio 4.1.0	RStudio: Integrated Development for R	https://posit.co/products/open-source/rstudio/
Network edge orienting (NEO) network
cOMG	This paper	https://github.com/jiezhuye/cOMG
Bowtie2(v2.3.564)	Langmead and Salzberg⁶⁴	http://bowtie-bio.sourceforge.net/bowtie2
MetaPhlAn3	(Francesco et al., 2021)⁶⁵	https://huttenhower.sph.harvard.edu/metaphlan3/
HUMAnN2	(Franzosa et al., 2018)⁶⁶	https://huttenhower.sph.harvard.edu/humann
ggplot2	(Wickham, 2016)⁶⁷	https://ggplot2.tidyverse.org/
PERMANOVA	Anderson⁶⁸	https://doi.org/10.1002/9781118445112.stat07841
DMM	(Holmes, et al., 2012)⁶⁹	http://code.google.com/p/microbedmm/
ShortBRED	(Kaminski et al., 2015)⁷⁰	https://huttenhower.sph.harvard.edu/shortbred

Experimental models: Organisms/strains

Mouse: C57BL/6J Mice	Beijing Vitalstar Biotechnology Co., Ltd	N/A
Mouse: Apolipoprotein E-deficient (Apoe^−/−) mice on C57BL/6J background	Beijing Vitalstar Biotechnology Co., Ltd	N/A