#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