#METABOLOMICS WORKBENCH bigfatgoalie01_20230427_113452 DATATRACK_ID:3909 STUDY_ID:ST002929 ANALYSIS_ID:AN004804 PROJECT_ID:PR001822
VERSION             	1
CREATED_ON             	October 11, 2023, 7:32 pm
#PROJECT
PR:PROJECT_TITLE                 	Role of hypoxia inducible factor-1a (HIF1a) in Skeletal Muscle Physiology
PR:PROJECT_SUMMARY               	Hypoxia-inducible factor (HIF)-1a is continuously synthesized and degraded in
PR:PROJECT_SUMMARY               	normoxia, whereas during hypoxia, HIF1a stabilization restricts cellular oxygen
PR:PROJECT_SUMMARY               	utilization. Less is known about HIF1a function(s) and sex-specific effects
PR:PROJECT_SUMMARY               	during normoxia in the basal state. Since skeletal muscle is the largest protein
PR:PROJECT_SUMMARY               	store in mammals and protein homeostasis has high energy demands, we determined
PR:PROJECT_SUMMARY               	HIF1a function at baseline during normoxia in skeletal muscle with the use of
PR:PROJECT_SUMMARY               	untargeted metabolomics.
PR:INSTITUTE                     	Cleveland Clinic
PR:DEPARTMENT                    	Inflammation and Immunity
PR:LAST_NAME                     	Dasarathy
PR:FIRST_NAME                    	Srinivasan
PR:ADDRESS                       	9500 Euclid Avenue
PR:EMAIL                         	dasaras@ccf.org
PR:PHONE                         	2163799846
PR:FUNDING_SOURCE                	NIH
#STUDY
ST:STUDY_TITLE                   	Hypoxia-inducible factor-1a (HIF1a) physiology in mouse skeletal muscle
ST:STUDY_SUMMARY                 	Hypoxia-inducible factor (HIF)-1a is continuously synthesized and degraded in
ST:STUDY_SUMMARY                 	normoxia, whereas during hypoxia, HIF1a stabilization restricts cellular oxygen
ST:STUDY_SUMMARY                 	utilization. Less is known about HIF1a function(s) and sex-specific effects
ST:STUDY_SUMMARY                 	during normoxia in the basal state. Since skeletal muscle is the largest protein
ST:STUDY_SUMMARY                 	store in mammals and protein homeostasis has high energy demands, we determined
ST:STUDY_SUMMARY                 	HIF1a function at baseline during normoxia in skeletal muscle with the use of
ST:STUDY_SUMMARY                 	untargeted metabolomics. Skeletal muscle from mice with and without skeletal
ST:STUDY_SUMMARY                 	muscle HIF1a deletion were harvested and analyzed using untargeted metabolomics
ST:STUDY_SUMMARY                 	(hydrophilic interaction (HILIC) and reverse phase liquid chromatography (RPLC)
ST:STUDY_SUMMARY                 	methods). We identified differentially expressed metabolites in the glycolytic
ST:STUDY_SUMMARY                 	and TCA cycle pathways.
ST:INSTITUTE                     	Cleveland Clinic
ST:DEPARTMENT                    	Inflammation and Immunity
ST:LAST_NAME                     	Dasarathy
ST:FIRST_NAME                    	Srinivasan
ST:ADDRESS                       	9500 Euclid Avenue, NE4-208
ST:EMAIL                         	dasaras@ccf.org
ST:PHONE                         	2163799846
#SUBJECT
SU:SUBJECT_TYPE                  	Mammal
SU:SUBJECT_SPECIES               	Mus musculus
SU:TAXONOMY_ID                   	10090
SU:AGE_OR_AGE_RANGE              	12-14 weeks
SU:GENDER                        	Male and female
#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           	-	HIFFloxFPBS1-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS25
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS2-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS26
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS5-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS27
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS6-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS28
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS7-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS29
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS8-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS30
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS1-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG25
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS2-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG26
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS5-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG27
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS6-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG28
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS7-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG29
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS8-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG30
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS1-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS25
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS2-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS26
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS5-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS27
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS6-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS28
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS7-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS29
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS8-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS30
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS1-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG25
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS2-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG26
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS5-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG27
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS6-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG28
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS7-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG29
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxFPBS8-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG30
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS1-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS31
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS2-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS32
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS3-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS33
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS4-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS34
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS7-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS35
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS8-C18Pos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS36
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS1-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG31
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS2-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG32
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS3-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG33
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS4-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG34
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS7-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG35
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS8-C18Neg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG36
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS1-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS31
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS2-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS32
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS3-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS33
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS4-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS34
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS7-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS35
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS8-HILICPos	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS36
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS1-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG31
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS2-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG32
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS3-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG33
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS4-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG34
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS7-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG35
SUBJECT_SAMPLE_FACTORS           	-	HIFFloxMPBS8-HILICNeg	Genotype:Floxed Control | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG36
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS1-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS48
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS2-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS49
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS3-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS50
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS4-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS51
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS5-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS52
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS6-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS53
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS1-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG48
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS2-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG49
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS3-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG50
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS4-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG51
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS5-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG52
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS6-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG53
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS1-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS48
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS2-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS49
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS3-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS50
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS4-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS51
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS5-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS52
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS6-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS53
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS1-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG48
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS2-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG49
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS3-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG50
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS4-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG51
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS5-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG52
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdFPBS6-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Female	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG53
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS1-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS54
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS3-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS55
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS4-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS56
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS5-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS57
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS6-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS58
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS8-C18Pos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_POS59
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS1-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG54
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS3-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG55
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS4-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG56
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS5-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG57
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS6-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG58
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS8-C18Neg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=C18; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_C18_10122020_NEG59
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS1-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS54
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS3-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS55
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS4-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS56
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS5-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS57
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS6-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS58
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS8-HILICPos	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Positive; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_POS59
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS1-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG54
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS3-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG55
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS4-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG56
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS5-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG57
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS6-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG58
SUBJECT_SAMPLE_FACTORS           	-	HIFmsdMPBS8-HILICNeg	Genotype:Muscle specific deletion | Treatment:PBS | Sex:Male	Column=HILIC; Mode=Negative; RAW_FILE_NAME=Dasarathy_255Tissue_COPD_HILIC_10192020_NEG59
#COLLECTION
CO:COLLECTION_SUMMARY            	Mice were sacrificed and gastrocnemius muscle collected, flash frozen, and
CO:COLLECTION_SUMMARY            	stored at -80deg until metabolite extraction. Metabolites were extracted from
CO:COLLECTION_SUMMARY            	myotubes and skeletal muscle using chilled methanol containing 6 spiked heavy
CO:COLLECTION_SUMMARY            	labeled internal standards (Choline-d13, Carnitine-d9, Betaine-d9,
CO:COLLECTION_SUMMARY            	Creatinine-d3, Picolinic acid-d4, Hippuric acid-d5). After centrifugation at
CO:COLLECTION_SUMMARY            	14,000g for 20 minutes to precipitate the protein pellet, the supernatant was
CO:COLLECTION_SUMMARY            	removed, dried, and reconstituted in 300 uL 98% water / 2% acetonitrile. LC/MS
CO:COLLECTION_SUMMARY            	(liquid chromatography/mass spectrometry) analysis was then performed, with 2
CO:COLLECTION_SUMMARY            	chromatography methods (C18 and HILIC) including on pooled quality control
CO:COLLECTION_SUMMARY            	samples.
CO:SAMPLE_TYPE                   	Muscle
CO:STORAGE_CONDITIONS            	-80℃
#TREATMENT
TR:TREATMENT_SUMMARY             	Osmotic pumps were filled with phosphate buffered saline (PBS) and surgically
TR:TREATMENT_SUMMARY             	implanted in mice aged 10-12 weeks. Mice were sacrificed 28 days after
TR:TREATMENT_SUMMARY             	implantation. These mice were in the untreated arm of a larger study comparing
TR:TREATMENT_SUMMARY             	hyperammonemic to untreated animals. The ammonia-treated samples are not
TR:TREATMENT_SUMMARY             	included in this data submission and will be included as part of a later
TR:TREATMENT_SUMMARY             	submission. Only the untreated samples are included in this data submission.
#SAMPLEPREP
SP:SAMPLEPREP_SUMMARY            	Metabolites were extracted from myotubes and skeletal muscle using chilled
SP:SAMPLEPREP_SUMMARY            	methanol containing 6 spiked heavy labeled internal standards (Choline-d13,
SP:SAMPLEPREP_SUMMARY            	Carnitine-d9, Betaine-d9, Creatinine-d3, Picolinic acid-d4, Hippuric acid-d5).
SP:SAMPLEPREP_SUMMARY            	After centrifugation at 14,000g for 20 minutes to precipitate the protein
SP:SAMPLEPREP_SUMMARY            	pellet, the supernatant was removed, dried, and reconstituted in 300 uL 98%
SP:SAMPLEPREP_SUMMARY            	water / 2% acetonitrile. LC/MS (liquid chromatography/mass spectrometry)
SP:SAMPLEPREP_SUMMARY            	analysis was then performed, with 2 chromatography methods (C18 and HILIC)
SP:SAMPLEPREP_SUMMARY            	including on pooled quality control samples.
#CHROMATOGRAPHY
CH:CHROMATOGRAPHY_SUMMARY        	HILIC
CH:CHROMATOGRAPHY_TYPE           	HILIC
CH:INSTRUMENT_NAME               	Thermo Vanquish
CH:COLUMN_NAME                   	Waters ACQUITY UPLC BEH Amide (150 x 2.1mm,1.7um)
CH:SOLVENT_A                     	100% water;10 mM ammonium acetate; 0.125% acetic acid
CH:SOLVENT_B                     	5% water/95% acetonitrile;10 mM ammonium acetate; 0.125% acetic acid
CH:FLOW_GRADIENT                 	Time (min.) Flow Rate (mL/min) %B 0.0 0.2 100 2.0 0.2 70 4.0 0.2 60 5.5 0.2 60
CH:FLOW_GRADIENT                 	10.5 0.2 50 11.5 0.2 50 12.0 0.2 100 16.0 0.2 100
CH:FLOW_RATE                     	0.2 mL/min
CH:COLUMN_TEMPERATURE            	40
#ANALYSIS
AN:ANALYSIS_TYPE                 	MS
#MS
MS:INSTRUMENT_NAME               	Thermo Q Exactive Focus
MS:INSTRUMENT_TYPE               	QTRAP
MS:MS_TYPE                       	ESI
MS:ION_MODE                      	NEGATIVE
MS:MS_COMMENTS                   	Data dependent acquisitions (DDA) on the pooled representative QC samples
MS:MS_COMMENTS                   	include MS full scans at a resolution of 120,000 and HCD MS/MS scans taken on
MS:MS_COMMENTS                   	the top 5 most abundant ions at a resolution of 30,000 with dynamic exclusion.
MS:MS_COMMENTS                   	The resolution of the MS2 scans were taken at a stepped NCE energy of 10.0, 20.0
MS:MS_COMMENTS                   	and 30.0.
MS:MS_RESULTS_FILE               	ST002929_AN004804_Results.txt	UNITS:relative abundance	Has m/z:Yes	Has RT:Yes	RT units:Seconds
#END