#METABOLOMICS WORKBENCH Markbrown_20250825_120634 DATATRACK_ID:6333 STUDY_ID:ST004181 ANALYSIS_ID:AN006943 PROJECT_ID:PR002637
VERSION             	1
CREATED_ON             	September 11, 2025, 9:34 am
#PROJECT
PR:PROJECT_TITLE                 	The Ability of Dietary Polyunsaturated Fatty Acids to Protect Against Liver
PR:PROJECT_TITLE                 	Inflammation and Non-Alcoholic Steatohepatitis (NASH) is Dependent on Gut
PR:PROJECT_TITLE                 	Microbes
PR:PROJECT_SUMMARY               	Non-alcoholic steatohepatitis (NASH) is a rapidly expanding form of liver
PR:PROJECT_SUMMARY               	disease associated with increased risk of cardiometabolic pathologies. Several
PR:PROJECT_SUMMARY               	clinical trials have shown that dietary ω3 polyunsaturated fatty acid (PUFA)
PR:PROJECT_SUMMARY               	supplementation, in particular eicosapentaenoic acid (EPA, 20:5,ω3) and
PR:PROJECT_SUMMARY               	docosahexaenoic acid (DHA, 22:6,ω3), improves health outcomes in NASH patients
PR:PROJECT_SUMMARY               	and lowers cardiovascular diseases. It is shown that ω3 PUFAs can suppress
PR:PROJECT_SUMMARY               	hepatic lipogenesis, resolve hepatic inflammation, and lower plasma
PR:PROJECT_SUMMARY               	triglycerides by reducing the production of hepatic very low-density
PR:PROJECT_SUMMARY               	lipoprotein. In parallel, there is emerging evidence that the gut microbiome can
PR:PROJECT_SUMMARY               	powerfully impact NASH via similar mechanisms. Although dietary PUFA
PR:PROJECT_SUMMARY               	supplementation can strongly impact host lipid metabolic pathways in the liver,
PR:PROJECT_SUMMARY               	it is often overlooked that gut microbiota can also synthesize and degrade
PR:PROJECT_SUMMARY               	diverse lipids. Here, we hypothesized that the ability of dietary PUFAs to
PR:PROJECT_SUMMARY               	suppress NASH and cardiometabolic diseases is dependent on microbe-host
PR:PROJECT_SUMMARY               	co-metabolism of lipids. This study provides a comprehensive lipidomic analysis
PR:PROJECT_SUMMARY               	defining unique dietary fatty acid-microbe-host interactions and have uncovered
PR:PROJECT_SUMMARY               	new insights into how meta-organismal metabolism impacts liver diseases and
PR:PROJECT_SUMMARY               	metabolic disorders.
PR:INSTITUTE                     	Cleveland Clinic
PR:DEPARTMENT                    	Cardiovascular and Metabolic Sciences
PR:LABORATORY                    	Brown Lab
PR:LAST_NAME                     	Brown
PR:FIRST_NAME                    	J. Mark
PR:ADDRESS                       	9500 Euclid Avenue, Cleveland, Ohio, 44196, USA
PR:EMAIL                         	brownm5@ccf.org
PR:PHONE                         	216 444 8340
#STUDY
ST:STUDY_TITLE                   	The Ability of Dietary Polyunsaturated Fatty Acids to Protect Against Liver
ST:STUDY_TITLE                   	Inflammation and Non-Alcoholic Steatohepatitis (NASH) is Dependent on Gut
ST:STUDY_TITLE                   	Microbes
ST:STUDY_SUMMARY                 	To test the hypothesis that the ability of dietary PUFAs to suppress NASH and
ST:STUDY_SUMMARY                 	cardiometabolic diseases is dependent on microbe-host co-metabolism of lipids,
ST:STUDY_SUMMARY                 	we fed either conventionally raised or germ-free C57BL6/N mice six sterile diets
ST:STUDY_SUMMARY                 	with well-defined levels of either saturated monounsaturated, ω6 PUFAs, or ω3
ST:STUDY_SUMMARY                 	PUFAs and comprehensively examined the diet-microbe-host interactions as they
ST:STUDY_SUMMARY                 	relate to NAFLD progression. Compared to a SFA control diet (palm oil with
ST:STUDY_SUMMARY                 	lard), which effectively promoted obesity and NASH, both ω6 (borage oil) and
ST:STUDY_SUMMARY                 	ω3 PUFAs (fish oil) reduced body weight and liver weight in conventional, but
ST:STUDY_SUMMARY                 	not germ-free mice. Furthermore, the ability of dietary SFA, MUFA, and PUFAs to
ST:STUDY_SUMMARY                 	uniquely alter the hepatic lipidome was clearly altered in germ-free versus
ST:STUDY_SUMMARY                 	conventional mice. Of particular interest, the ability of dietary ω3 PUFAs to
ST:STUDY_SUMMARY                 	increase certain species of pro-resolving lipid mediators in the liver was
ST:STUDY_SUMMARY                 	prevented in germ-free mice. Collectively, this study provides a comprehensive
ST:STUDY_SUMMARY                 	lipidomic analysis defining unique dietary fatty acid-microbe-host interactions
ST:STUDY_SUMMARY                 	and have uncovered new insights into how meta-organismal metabolism impacts
ST:STUDY_SUMMARY                 	liver diseases and metabolic disorders.
ST:INSTITUTE                     	Cleveland Clinic
ST:DEPARTMENT                    	Cardiovascular and Metabolic Sciences
ST:LABORATORY                    	Brown Lab
ST:LAST_NAME                     	Brown
ST:FIRST_NAME                    	J. Mark
ST:ADDRESS                       	9500 Euclid Avenue, Cleveland, Ohio, 44196, USA
ST:EMAIL                         	brownm5@ccf.org
ST:PHONE                         	+1 216 444 8340
#SUBJECT
SU:SUBJECT_TYPE                  	Mammal
SU:SUBJECT_SPECIES               	Mus musculus
SU:TAXONOMY_ID                   	10090
#SUBJECT_SAMPLE_FACTORS:         	SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Raw file names and additional sample data
SUBJECT_SAMPLE_FACTORS           	CS5	6473C18	Sample source:LIVER | Genotype:MPF | Treatment:HOS	Batch=B1a; RAW_FILE_NAME=6473C18.raw
SUBJECT_SAMPLE_FACTORS           	CS3	6474C19	Sample source:LIVER | Genotype:MPF | Treatment:HOS	Batch=B1a; RAW_FILE_NAME=6474C19.raw
SUBJECT_SAMPLE_FACTORS           	CS23	6480C20	Sample source:LIVER | Genotype:MPF | Treatment:HOS	Batch=B1a; RAW_FILE_NAME=6480C20.raw
SUBJECT_SAMPLE_FACTORS           	CS12	6475C21	Sample source:LIVER | Genotype:MPF | Treatment:HOS	Batch=B1a; RAW_FILE_NAME=6475C21.raw
SUBJECT_SAMPLE_FACTORS           	CS6	6476C22	Sample source:LIVER | Genotype:MPF | Treatment:HOS	Batch=B1a; RAW_FILE_NAME=6476C22.raw
SUBJECT_SAMPLE_FACTORS           	CS10	6451C23	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1a; RAW_FILE_NAME=6451C23.raw
SUBJECT_SAMPLE_FACTORS           	CS15	6454C24	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1a; RAW_FILE_NAME=6454C24.raw
SUBJECT_SAMPLE_FACTORS           	CS36	6450C25	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1a; RAW_FILE_NAME=6450C25.raw
SUBJECT_SAMPLE_FACTORS           	CS17	6455C26	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1a; RAW_FILE_NAME=6455C26.raw
SUBJECT_SAMPLE_FACTORS           	CS26	6449C27	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1a; RAW_FILE_NAME=6449C27.raw
SUBJECT_SAMPLE_FACTORS           	CS37	6453C28	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1a; RAW_FILE_NAME=6453C28.raw
SUBJECT_SAMPLE_FACTORS           	CS19	6437C29	Sample source:LIVER | Genotype:MPF | Treatment:ECHIUM	Batch=B1a; RAW_FILE_NAME=6437C29.raw
SUBJECT_SAMPLE_FACTORS           	CS20	6441C30	Sample source:LIVER | Genotype:MPF | Treatment:ECHIUM	Batch=B1a; RAW_FILE_NAME=6441C30.raw
SUBJECT_SAMPLE_FACTORS           	CS13	6438C31	Sample source:LIVER | Genotype:MPF | Treatment:ECHIUM	Batch=B1a; RAW_FILE_NAME=6438C31.raw
SUBJECT_SAMPLE_FACTORS           	CS22	6435C32	Sample source:LIVER | Genotype:MPF | Treatment:ECHIUM	Batch=B1a; RAW_FILE_NAME=6435C32.raw
SUBJECT_SAMPLE_FACTORS           	CS29	6442C33	Sample source:LIVER | Genotype:MPF | Treatment:ECHIUM	Batch=B1a; RAW_FILE_NAME=6442C33.raw
SUBJECT_SAMPLE_FACTORS           	CS25	6424C34	Sample source:LIVER | Genotype:MPF | Treatment:BORAGE	Batch=B1a; RAW_FILE_NAME=6424C34.raw
SUBJECT_SAMPLE_FACTORS           	CS21	6429C35	Sample source:LIVER | Genotype:MPF | Treatment:BORAGE	Batch=B1a; RAW_FILE_NAME=6429C35.raw
SUBJECT_SAMPLE_FACTORS           	CS27	6431C36	Sample source:LIVER | Genotype:MPF | Treatment:BORAGE	Batch=B1a; RAW_FILE_NAME=6431C36.raw
SUBJECT_SAMPLE_FACTORS           	CS28	6427C37	Sample source:LIVER | Genotype:MPF | Treatment:BORAGE	Batch=B1a; RAW_FILE_NAME=6427C37.raw
SUBJECT_SAMPLE_FACTORS           	CS8	6425C38	Sample source:LIVER | Genotype:MPF | Treatment:BORAGE	Batch=B1a; RAW_FILE_NAME=6425C38.raw
SUBJECT_SAMPLE_FACTORS           	CS48	6517C39	Sample source:LIVER | Genotype:GF | Treatment:ECHIUM	Batch=B1a; RAW_FILE_NAME=6517C39.raw
SUBJECT_SAMPLE_FACTORS           	CS30	6507C40	Sample source:LIVER | Genotype:GF | Treatment:ECHIUM	Batch=B1a; RAW_FILE_NAME=6507C40.raw
SUBJECT_SAMPLE_FACTORS           	CS31	6516C41	Sample source:LIVER | Genotype:GF | Treatment:ECHIUM	Batch=B1a; RAW_FILE_NAME=6516C41.raw
SUBJECT_SAMPLE_FACTORS           	CS32	6515C42	Sample source:LIVER | Genotype:GF | Treatment:ECHIUM	Batch=B1a; RAW_FILE_NAME=6515C42.raw
SUBJECT_SAMPLE_FACTORS           	CS61	6514C43	Sample source:LIVER | Genotype:GF | Treatment:ECHIUM	Batch=B1a; RAW_FILE_NAME=6514C43.raw
SUBJECT_SAMPLE_FACTORS           	CS59	6495C44	Sample source:LIVER | Genotype:GF | Treatment:BORAGE	Batch=B1a; RAW_FILE_NAME=6495C44.raw
SUBJECT_SAMPLE_FACTORS           	CS55	6503C45	Sample source:LIVER | Genotype:GF | Treatment:BORAGE	Batch=B1a; RAW_FILE_NAME=6503C45.raw
SUBJECT_SAMPLE_FACTORS           	CS52	6496C46	Sample source:LIVER | Genotype:GF | Treatment:BORAGE	Batch=B1a; RAW_FILE_NAME=6496C46.raw
SUBJECT_SAMPLE_FACTORS           	CS46	6497C47	Sample source:LIVER | Genotype:GF | Treatment:BORAGE	Batch=B1a; RAW_FILE_NAME=6497C47.raw
SUBJECT_SAMPLE_FACTORS           	CS39	6502C48	Sample source:LIVER | Genotype:GF | Treatment:BORAGE	Batch=B1a; RAW_FILE_NAME=6502C48.raw
SUBJECT_SAMPLE_FACTORS           	CS38	6551C49	Sample source:LIVER | Genotype:GF | Treatment:HOS	Batch=B1a; RAW_FILE_NAME=6551C49.raw
SUBJECT_SAMPLE_FACTORS           	CS40	6549C50	Sample source:LIVER | Genotype:GF | Treatment:HOS	Batch=B1a; RAW_FILE_NAME=6549C50.raw
SUBJECT_SAMPLE_FACTORS           	CS47	6542C51	Sample source:LIVER | Genotype:GF | Treatment:HOS	Batch=B1a; RAW_FILE_NAME=6542C51.raw
SUBJECT_SAMPLE_FACTORS           	CS60	6553C52	Sample source:LIVER | Genotype:GF | Treatment:HOS	Batch=B1a; RAW_FILE_NAME=6553C52.raw
SUBJECT_SAMPLE_FACTORS           	CS41	6544C53	Sample source:LIVER | Genotype:GF | Treatment:HOS	Batch=B1a; RAW_FILE_NAME=6544C53.raw
SUBJECT_SAMPLE_FACTORS           	CS42	6525C54	Sample source:LIVER | Genotype:GF | Treatment:FISH	Batch=B1a; RAW_FILE_NAME=6525C54.raw
SUBJECT_SAMPLE_FACTORS           	CS43	6519C55	Sample source:LIVER | Genotype:GF | Treatment:FISH	Batch=B1a; RAW_FILE_NAME=6519C55.raw
SUBJECT_SAMPLE_FACTORS           	CS44	6521C56	Sample source:LIVER | Genotype:GF | Treatment:FISH	Batch=B1a; RAW_FILE_NAME=6521C56.raw
SUBJECT_SAMPLE_FACTORS           	CS45	6526C57	Sample source:LIVER | Genotype:GF | Treatment:FISH	Batch=B1a; RAW_FILE_NAME=6526C57.raw
SUBJECT_SAMPLE_FACTORS           	CS49	6528C58	Sample source:LIVER | Genotype:GF | Treatment:FISH	Batch=B1a; RAW_FILE_NAME=6528C58.raw
SUBJECT_SAMPLE_FACTORS           	CS33	6530C59	Sample source:LIVER | Genotype:GF | Treatment:HLS	Batch=B1a; RAW_FILE_NAME=6530C59.raw
SUBJECT_SAMPLE_FACTORS           	CS50	6539C60	Sample source:LIVER | Genotype:GF | Treatment:HLS	Batch=B1a; RAW_FILE_NAME=6539C60.raw
SUBJECT_SAMPLE_FACTORS           	CS51	6533C61	Sample source:LIVER | Genotype:GF | Treatment:HLS	Batch=B1a; RAW_FILE_NAME=6533C61.raw
SUBJECT_SAMPLE_FACTORS           	CS56	6532C62	Sample source:LIVER | Genotype:GF | Treatment:HLS	Batch=B1a; RAW_FILE_NAME=6532C62.raw
SUBJECT_SAMPLE_FACTORS           	CS53	6534C63	Sample source:LIVER | Genotype:GF | Treatment:HLS	Batch=B1a; RAW_FILE_NAME=6534C63.raw
SUBJECT_SAMPLE_FACTORS           	CS54	6488C64	Sample source:LIVER | Genotype:GF | Treatment:PALM	Batch=B1a; RAW_FILE_NAME=6488C64.raw
SUBJECT_SAMPLE_FACTORS           	CS34	6482C65	Sample source:LIVER | Genotype:GF | Treatment:PALM	Batch=B1a; RAW_FILE_NAME=6482C65.raw
SUBJECT_SAMPLE_FACTORS           	CS35	6487C66	Sample source:LIVER | Genotype:GF | Treatment:PALM	Batch=B1a; RAW_FILE_NAME=6487C66.raw
SUBJECT_SAMPLE_FACTORS           	CS57	6483C67	Sample source:LIVER | Genotype:GF | Treatment:PALM	Batch=B1a; RAW_FILE_NAME=6483C67.raw
SUBJECT_SAMPLE_FACTORS           	CS58	6492C68	Sample source:LIVER | Genotype:GF | Treatment:PALM	Batch=B1a; RAW_FILE_NAME=6492C68.raw
SUBJECT_SAMPLE_FACTORS           	CS1	6458C69	Sample source:LIVER | Genotype:MPF | Treatment:HLS	Batch=B1a; RAW_FILE_NAME=6458C69.raw
SUBJECT_SAMPLE_FACTORS           	CS14	6464C70	Sample source:LIVER | Genotype:MPF | Treatment:HLS	Batch=B1a; RAW_FILE_NAME=6464C70.raw
SUBJECT_SAMPLE_FACTORS           	CS18	6466C71	Sample source:LIVER | Genotype:MPF | Treatment:HLS	Batch=B1a; RAW_FILE_NAME=6466C71.raw
SUBJECT_SAMPLE_FACTORS           	CS2	6459C72	Sample source:LIVER | Genotype:MPF | Treatment:HLS	Batch=B1a; RAW_FILE_NAME=6459C72.raw
SUBJECT_SAMPLE_FACTORS           	CS4	6469C73	Sample source:LIVER | Genotype:MPF | Treatment:HLS	Batch=B1a; RAW_FILE_NAME=6469C73.raw
SUBJECT_SAMPLE_FACTORS           	CS9	6417C74	Sample source:LIVER | Genotype:MPF | Treatment:PALM	Batch=B1a; RAW_FILE_NAME=6417C74.raw
SUBJECT_SAMPLE_FACTORS           	CS11	6421C75	Sample source:LIVER | Genotype:MPF | Treatment:PALM	Batch=B1a; RAW_FILE_NAME=6421C75.raw
SUBJECT_SAMPLE_FACTORS           	CS16	6415C76	Sample source:LIVER | Genotype:MPF | Treatment:PALM	Batch=B1a; RAW_FILE_NAME=6415C76.raw
SUBJECT_SAMPLE_FACTORS           	CS24	6420C77	Sample source:LIVER | Genotype:MPF | Treatment:PALM	Batch=B1a; RAW_FILE_NAME=6420C77.raw
SUBJECT_SAMPLE_FACTORS           	CS7	6410C78	Sample source:LIVER | Genotype:MPF | Treatment:PALM	Batch=B1a; RAW_FILE_NAME=6410C78.raw
SUBJECT_SAMPLE_FACTORS           	HS5	6473HIL18	Sample source:LIVER | Genotype:MPF | Treatment:HOS	Batch=B1b; RAW_FILE_NAME=6473HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS3	6474HIL19	Sample source:LIVER | Genotype:MPF | Treatment:HOS	Batch=B1b; RAW_FILE_NAME=6474HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS23	6480HIL20	Sample source:LIVER | Genotype:MPF | Treatment:HOS	Batch=B1b; RAW_FILE_NAME=6480HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS12	6475HIL21	Sample source:LIVER | Genotype:MPF | Treatment:HOS	Batch=B1b; RAW_FILE_NAME=6475HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS6	6476HIL22	Sample source:LIVER | Genotype:MPF | Treatment:HOS	Batch=B1b; RAW_FILE_NAME=6476HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS10	6451HIL23	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1b; RAW_FILE_NAME=6451HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS15	6454HIL24	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1b; RAW_FILE_NAME=6454HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS36	6450HIL25	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1b; RAW_FILE_NAME=6450HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS17	6455HIL26	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1b; RAW_FILE_NAME=6455HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS26	6449HIL27	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1b; RAW_FILE_NAME=6449HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS37	6453HIL28	Sample source:LIVER | Genotype:MPF | Treatment:FISH	Batch=B1b; RAW_FILE_NAME=6453HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS19	6437HIL29	Sample source:LIVER | Genotype:MPF | Treatment:ECHIUM	Batch=B1b; RAW_FILE_NAME=6437HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS20	6441HIL30	Sample source:LIVER | Genotype:MPF | Treatment:ECHIUM	Batch=B1b; RAW_FILE_NAME=6441HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS13	6438HIL31	Sample source:LIVER | Genotype:MPF | Treatment:ECHIUM	Batch=B1b; RAW_FILE_NAME=6438HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS22	6435HIL32	Sample source:LIVER | Genotype:MPF | Treatment:ECHIUM	Batch=B1b; RAW_FILE_NAME=6435HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS29	6442HIL33	Sample source:LIVER | Genotype:MPF | Treatment:ECHIUM	Batch=B1b; RAW_FILE_NAME=6442HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS25	6424HIL34	Sample source:LIVER | Genotype:MPF | Treatment:BORAGE	Batch=B1b; RAW_FILE_NAME=6424HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS21	6429HIL35	Sample source:LIVER | Genotype:MPF | Treatment:BORAGE	Batch=B1b; RAW_FILE_NAME=6429HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS27	6431HIL36	Sample source:LIVER | Genotype:MPF | Treatment:BORAGE	Batch=B1b; RAW_FILE_NAME=6431HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS28	6427HIL37	Sample source:LIVER | Genotype:MPF | Treatment:BORAGE	Batch=B1b; RAW_FILE_NAME=6427HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS8	6425HIL38	Sample source:LIVER | Genotype:MPF | Treatment:BORAGE	Batch=B1b; RAW_FILE_NAME=6425HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS48	6517HIL39	Sample source:LIVER | Genotype:GF | Treatment:ECHIUM	Batch=B1b; RAW_FILE_NAME=6517HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS30	6507HIL40	Sample source:LIVER | Genotype:GF | Treatment:ECHIUM	Batch=B1b; RAW_FILE_NAME=6507HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS31	6516HIL41	Sample source:LIVER | Genotype:GF | Treatment:ECHIUM	Batch=B1b; RAW_FILE_NAME=6516HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS32	6515HIL42	Sample source:LIVER | Genotype:GF | Treatment:ECHIUM	Batch=B1b; RAW_FILE_NAME=6515HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS61	6514HIL43	Sample source:LIVER | Genotype:GF | Treatment:ECHIUM	Batch=B1b; RAW_FILE_NAME=6514HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS59	6495HIL44	Sample source:LIVER | Genotype:GF | Treatment:BORAGE	Batch=B1b; RAW_FILE_NAME=6495HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS55	6503HIL45	Sample source:LIVER | Genotype:GF | Treatment:BORAGE	Batch=B1b; RAW_FILE_NAME=6503HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS52	6496HIL46	Sample source:LIVER | Genotype:GF | Treatment:BORAGE	Batch=B1b; RAW_FILE_NAME=6496HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS46	6497HIL47	Sample source:LIVER | Genotype:GF | Treatment:BORAGE	Batch=B1b; RAW_FILE_NAME=6497HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS39	6502HIL48	Sample source:LIVER | Genotype:GF | Treatment:BORAGE	Batch=B1b; RAW_FILE_NAME=6502HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS38	6551HIL49	Sample source:LIVER | Genotype:GF | Treatment:HOS	Batch=B1b; RAW_FILE_NAME=6551HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS40	6549HIL50	Sample source:LIVER | Genotype:GF | Treatment:HOS	Batch=B1b; RAW_FILE_NAME=6549HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS47	6542HIL51	Sample source:LIVER | Genotype:GF | Treatment:HOS	Batch=B1b; RAW_FILE_NAME=6542HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS60	6553HIL52	Sample source:LIVER | Genotype:GF | Treatment:HOS	Batch=B1b; RAW_FILE_NAME=6553HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS41	6544HIL53	Sample source:LIVER | Genotype:GF | Treatment:HOS	Batch=B1b; RAW_FILE_NAME=6544HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS42	6525HIL54	Sample source:LIVER | Genotype:GF | Treatment:FISH	Batch=B1b; RAW_FILE_NAME=6525HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS43	6519HIL55	Sample source:LIVER | Genotype:GF | Treatment:FISH	Batch=B1b; RAW_FILE_NAME=6519HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS44	6521HIL56	Sample source:LIVER | Genotype:GF | Treatment:FISH	Batch=B1b; RAW_FILE_NAME=6521HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS45	6526HIL57	Sample source:LIVER | Genotype:GF | Treatment:FISH	Batch=B1b; RAW_FILE_NAME=6526HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS49	6528HIL58	Sample source:LIVER | Genotype:GF | Treatment:FISH	Batch=B1b; RAW_FILE_NAME=6528HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS33	6530HIL59	Sample source:LIVER | Genotype:GF | Treatment:HLS	Batch=B1b; RAW_FILE_NAME=6530HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS50	6539HIL60	Sample source:LIVER | Genotype:GF | Treatment:HLS	Batch=B1b; RAW_FILE_NAME=6539HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS51	6533HIL61	Sample source:LIVER | Genotype:GF | Treatment:HLS	Batch=B1b; RAW_FILE_NAME=6533HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS56	6532HIL62	Sample source:LIVER | Genotype:GF | Treatment:HLS	Batch=B1b; RAW_FILE_NAME=6532HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS53	6534HIL63	Sample source:LIVER | Genotype:GF | Treatment:HLS	Batch=B1b; RAW_FILE_NAME=6534HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS54	6488HIL64	Sample source:LIVER | Genotype:GF | Treatment:PALM	Batch=B1b; RAW_FILE_NAME=6488HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS34	6482HIL65	Sample source:LIVER | Genotype:GF | Treatment:PALM	Batch=B1b; RAW_FILE_NAME=6482HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS35	6487HIL66	Sample source:LIVER | Genotype:GF | Treatment:PALM	Batch=B1b; RAW_FILE_NAME=6487HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS57	6483HIL67	Sample source:LIVER | Genotype:GF | Treatment:PALM	Batch=B1b; RAW_FILE_NAME=6483HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS58	6492HIL68	Sample source:LIVER | Genotype:GF | Treatment:PALM	Batch=B1b; RAW_FILE_NAME=6492HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS1	6458HIL69	Sample source:LIVER | Genotype:MPF | Treatment:HLS	Batch=B1b; RAW_FILE_NAME=6458HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS14	6464HIL70	Sample source:LIVER | Genotype:MPF | Treatment:HLS	Batch=B1b; RAW_FILE_NAME=6464HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS18	6466HIL71	Sample source:LIVER | Genotype:MPF | Treatment:HLS	Batch=B1b; RAW_FILE_NAME=6466HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS2	6459HIL72	Sample source:LIVER | Genotype:MPF | Treatment:HLS	Batch=B1b; RAW_FILE_NAME=6459HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS4	6469HIL73	Sample source:LIVER | Genotype:MPF | Treatment:HLS	Batch=B1b; RAW_FILE_NAME=6469HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS9	6417HIL74	Sample source:LIVER | Genotype:MPF | Treatment:PALM	Batch=B1b; RAW_FILE_NAME=6417HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS11	6421HIL75	Sample source:LIVER | Genotype:MPF | Treatment:PALM	Batch=B1b; RAW_FILE_NAME=6421HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS16	6415HIL76	Sample source:LIVER | Genotype:MPF | Treatment:PALM	Batch=B1b; RAW_FILE_NAME=6415HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS24	6420HIL77	Sample source:LIVER | Genotype:MPF | Treatment:PALM	Batch=B1b; RAW_FILE_NAME=6420HIL.raw
SUBJECT_SAMPLE_FACTORS           	HS7	6410HIL78	Sample source:LIVER | Genotype:MPF | Treatment:PALM	Batch=B1b; RAW_FILE_NAME=6410HIL.raw
#COLLECTION
CO:COLLECTION_SUMMARY            	We fed age-matched male C57BL6/N mice either without (germ-free) or with gut
CO:COLLECTION_SUMMARY            	microbes (specific-pathogen-free, SPF), 6 diets with varying saturated versus
CO:COLLECTION_SUMMARY            	monounsaturated versus polyunsaturated diets for a period of 18 weeks. Following
CO:COLLECTION_SUMMARY            	experimental feeding, liver samples were collected to examine the ability of gut
CO:COLLECTION_SUMMARY            	microbes to influence the effects of dietary fatty acids on obesity-related
CO:COLLECTION_SUMMARY            	metabolic disturbance.
CO:SAMPLE_TYPE                   	Liver
#TREATMENT
TR:TREATMENT_SUMMARY             	Conventionally raised or germ-free C57BL6/N mice were fed with six sterile diets
TR:TREATMENT_SUMMARY             	(palm, borage, fish, echium, high linoleic safflower, high oleic safflower) with
TR:TREATMENT_SUMMARY             	well-defined levels of either saturated monounsaturated, ω6 PUFAs, or ω3 PUFAs
TR:TREATMENT_SUMMARY             	and these were used to comprehensively examined diet-microbe-host interactions
TR:TREATMENT_SUMMARY             	as they relate to NAFLD progression.
#SAMPLEPREP
SP:SAMPLEPREP_SUMMARY            	Sixty one liver samples were prepared for untargeted metabolomics. . In brief,
SP:SAMPLEPREP_SUMMARY            	tissues were initially thawed on ice. About 50mg were cut and placed into 1.5mL
SP:SAMPLEPREP_SUMMARY            	MPbio lysing matrix D tubes. 600 µL of chilled 70% methanol/20%water/10%
SP:SAMPLEPREP_SUMMARY            	chloroform containing 50 µM heavy-labeled internal standards (Table 1) were
SP:SAMPLEPREP_SUMMARY            	pipetted into each tube and homogenized using 6x3mm Zirconium beads 3x at high
SP:SAMPLEPREP_SUMMARY            	speed (4000 rpm) in 30 second intervals with rest on ice. Bead containing blank
SP:SAMPLEPREP_SUMMARY            	tubes with no tissue were also set up as quality check and treated similarly as
SP:SAMPLEPREP_SUMMARY            	samples. Both blank and tissue tubes were homogenized. Homogenates were then
SP:SAMPLEPREP_SUMMARY            	vortexed for 10 seconds and kept on ice for 5 minutes (x2) followed by
SP:SAMPLEPREP_SUMMARY            	centrifugation at 10,000xg for 15 min at 4°C. The supernatants were dried
SP:SAMPLEPREP_SUMMARY            	overnight in a speed vacuum and dried extracts were re-suspended in 95:5
SP:SAMPLEPREP_SUMMARY            	water/acetonitrile (%v/v) and normalized based on dilution to control for
SP:SAMPLEPREP_SUMMARY            	different tissue weights. Each sample was then randomized and subjected to LC-MS
SP:SAMPLEPREP_SUMMARY            	analysis. 2 µL from each sample was taken and pooled and this pooled QC sample
SP:SAMPLEPREP_SUMMARY            	was analyzed every 5th injection.
SP:PROCESSING_STORAGE_CONDITIONS 	On ice
SP:EXTRACT_STORAGE               	-80℃
SP:SAMPLE_RESUSPENSION           	95:5 water/acetonitrile (%v/v)
#CHROMATOGRAPHY
CH:CHROMATOGRAPHY_TYPE           	HILIC
CH:INSTRUMENT_NAME               	Thermo Vanquish
CH:COLUMN_NAME                   	Waters XBridge BEH Amide Column (150 x 2.1 mm, 2.5 µm
CH:SOLVENT_A                     	100% Water; 10 mM ammonium acetate; 0.125% acetic acid
CH:SOLVENT_B                     	95% acetonitrile/5% Water; 10 mM ammonium acetate; 0.125% acetic acid
CH:FLOW_GRADIENT                 	0-2 min:70%B; 2-4 min :60%B; 4-5.5 min:60%B; 5.5-10.5 min:50%B; 10.5-11.5
CH:FLOW_GRADIENT                 	min:50%B;11.5-12 min:100%B; 12-16 min:100%B
CH:FLOW_RATE                     	0.2 mL/min
CH:COLUMN_TEMPERATURE            	60℃
#ANALYSIS
AN:ANALYSIS_TYPE                 	MS
AN:LABORATORY_NAME               	Cleveland Clinic LRI Metabolomics Core
#MS
MS:INSTRUMENT_NAME               	Thermo Q Exactive Orbitrap
MS:INSTRUMENT_TYPE               	Orbitrap
MS:MS_TYPE                       	ESI
MS:ION_MODE                      	NEGATIVE
MS:MS_COMMENTS                   	Data were acquired on XCalibur. Data was processed using MSDIAL 1 (v.4.92) for
MS:MS_COMMENTS                   	feature detection, identification and alignment using parameters optimized for
MS:MS_COMMENTS                   	data acquired on an Orbitrap mass spectrometer. MS1 and MS2 were set to profile
MS:MS_COMMENTS                   	mode in both positive and negative ionization modes.
MS:MS_RESULTS_FILE               	ST004181_AN006943_Results.txt	UNITS:Peak abundance	Has m/z:Yes	Has RT:Yes	RT units:Minutes
#END