{
"METABOLOMICS WORKBENCH":{"STUDY_ID":"ST002147","ANALYSIS_ID":"AN003516","VERSION":"1","CREATED_ON":"April 21, 2022, 12:06 pm"},

"PROJECT":{"PROJECT_TITLE":"Welhaven_JBMR_tissues","PROJECT_SUMMARY":"This experiment investigated metabolomic differences female musculoskeletal tissues.","INSTITUTE":"Montana State University","LAST_NAME":"Welhaven","FIRST_NAME":"Hope","ADDRESS":"Culbertson Hall, 100","EMAIL":"hwelhaven@gmail.com","PHONE":"4066961526","FUNDING_SOURCE":"National Science Foundation (CMMI 1554708, CMMI 2120239) and the National Institutes of Health (NIAMS R01AR073964, NIGMS P20GM103474, NIH R03AG068680"},

"STUDY":{"STUDY_TITLE":"Metabolomic differences detected in female C57BL/6 mice","STUDY_SUMMARY":"Mice were euthanized at 20 weeks of age, and humeri were obtained for metabolomic analyses. Once obtained, marrow was flushed in some humeri resulting in 3 sample types including whole bone, bone marrow, and isolated cortical bone. Metabolites were extracted and underwent LC-MS analysis using an Agilent LC 1290 coupled to an Agilent 6538 QTOF","INSTITUTE":"Montana State University","LAST_NAME":"Welhaven","FIRST_NAME":"Hope","ADDRESS":"Culbertson Hall, 100","EMAIL":"hwelhaven@gmail.com","PHONE":"4066961526","NUM_GROUPS":"3","TOTAL_SUBJECTS":"10","NUM_FEMALES":"10"},

"SUBJECT":{"SUBJECT_TYPE":"Mammal","SUBJECT_SPECIES":"Mus musculus","TAXONOMY_ID":"10090","GENOTYPE_STRAIN":"C57Bl/6","AGE_OR_AGE_RANGE":"20 weeks (at euthanasia)","GENDER":"Female","ANIMAL_ANIMAL_SUPPLIER":"Jackson Labratories","ANIMAL_LIGHT_CYCLE":"Standard light dark cycle","ANIMAL_FEED":"PicoLab Rodent Diet 20, 20% protein"},
"SUBJECT_SAMPLE_FACTORS":[
{
"Subject ID":"-",
"Sample ID":"MV1",
"Factors":{"Sex":"F","Tissue":"isolated_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_isolatedbone_1"}
},
{
"Subject ID":"-",
"Sample ID":"MV2",
"Factors":{"Sex":"F","Tissue":"isolated_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_isolatedbone_2"}
},
{
"Subject ID":"-",
"Sample ID":"MV3",
"Factors":{"Sex":"F","Tissue":"isolated_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_isolatedbone_3"}
},
{
"Subject ID":"-",
"Sample ID":"MV4",
"Factors":{"Sex":"F","Tissue":"isolated_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_isolatedbone_4"}
},
{
"Subject ID":"-",
"Sample ID":"MV5",
"Factors":{"Sex":"F","Tissue":"isolated_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_isolatedbone_5"}
},
{
"Subject ID":"-",
"Sample ID":"MV6",
"Factors":{"Sex":"F","Tissue":"isolated_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_isolatedbone_6"}
},
{
"Subject ID":"-",
"Sample ID":"MV7",
"Factors":{"Sex":"F","Tissue":"isolated_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_isolatedbone_7"}
},
{
"Subject ID":"-",
"Sample ID":"MV8",
"Factors":{"Sex":"F","Tissue":"isolated_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_isolatedbone_8"}
},
{
"Subject ID":"-",
"Sample ID":"MV9",
"Factors":{"Sex":"F","Tissue":"whole_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_wholebone_9"}
},
{
"Subject ID":"-",
"Sample ID":"MV10",
"Factors":{"Sex":"F","Tissue":"whole_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_wholebone_10"}
},
{
"Subject ID":"-",
"Sample ID":"MV11",
"Factors":{"Sex":"F","Tissue":"whole_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_wholebone_11"}
},
{
"Subject ID":"-",
"Sample ID":"MV12",
"Factors":{"Sex":"F","Tissue":"whole_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_wholebone_12"}
},
{
"Subject ID":"-",
"Sample ID":"MV13",
"Factors":{"Sex":"F","Tissue":"whole_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_wholebone_13"}
},
{
"Subject ID":"-",
"Sample ID":"MV14",
"Factors":{"Sex":"F","Tissue":"whole_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_wholebone_14"}
},
{
"Subject ID":"-",
"Sample ID":"MV15",
"Factors":{"Sex":"F","Tissue":"whole_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_wholebone_15"}
},
{
"Subject ID":"-",
"Sample ID":"MV16",
"Factors":{"Sex":"F","Tissue":"whole_bone"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_wholebone_16"}
},
{
"Subject ID":"-",
"Sample ID":"MV17",
"Factors":{"Sex":"F","Tissue":"bone_marrow"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_bonemarrow_17"}
},
{
"Subject ID":"-",
"Sample ID":"MV18",
"Factors":{"Sex":"F","Tissue":"bone_marrow"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_bonemarrow_18"}
},
{
"Subject ID":"-",
"Sample ID":"MV19",
"Factors":{"Sex":"F","Tissue":"bone_marrow"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_bonemarrow_19"}
},
{
"Subject ID":"-",
"Sample ID":"MV20",
"Factors":{"Sex":"F","Tissue":"bone_marrow"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_bonemarrow_20"}
},
{
"Subject ID":"-",
"Sample ID":"MV21",
"Factors":{"Sex":"F","Tissue":"bone_marrow"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_bonemarrow_21"}
},
{
"Subject ID":"-",
"Sample ID":"MV22",
"Factors":{"Sex":"F","Tissue":"bone_marrow"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_bonemarrow_22"}
},
{
"Subject ID":"-",
"Sample ID":"MV23",
"Factors":{"Sex":"F","Tissue":"bone_marrow"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_bonemarrow_23"}
},
{
"Subject ID":"-",
"Sample ID":"MV24",
"Factors":{"Sex":"F","Tissue":"bone_marrow"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_bonemarrow_24"}
},
{
"Subject ID":"-",
"Sample ID":"MV25",
"Factors":{"Sex":"F","Tissue":"bone_marrow"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_bonemarrow_25"}
},
{
"Subject ID":"-",
"Sample ID":"MV26",
"Factors":{"Sex":"F","Tissue":"bone_marrow"},
"Additional sample data":{"RAW_FILE_NAME":"Welhaven_bonemarrow_26"}
}
],
"COLLECTION":{"COLLECTION_SUMMARY":"Samples were collected following mouse euthanasia. The humerus was obtained and bone marrow was flushed resulting in 3 groups: isolated bone, bone marrow, and whole bone (has intact marrow).","SAMPLE_TYPE":"Bone and bone marrow"},

"TREATMENT":{"TREATMENT_SUMMARY":"Mice were housed at Montana State University after being obtained from Jackson labs. During this time, mice were kept on a light/dark cycle and fed a standard chow diet ad libitum. Upon 20 weeks of age, mice were euthanized. No additional factors such as injury, diet, or exercise occurred. Mice were simply used to analyze differences in metabolism between musculoskeletal tissues."},

"SAMPLEPREP":{"SAMPLEPREP_SUMMARY":"Once euthanized, tissues were dissected and harvested. Samples underwent a methanol:acetone extraction and underwent rounds of centrifugation. Once metabolites were isolated, samples were dried via vacuum concentration and resuspended with acetonitrile:water for LC-MS analysis."},

"CHROMATOGRAPHY":{"CHROMATOGRAPHY_SUMMARY":"Samples were analyzed using an Agilent 1290 UPLC coupled to an Agilent 6538 QTOF. All samples were run in normal phase using a Cogent Diamond Hydride HILIC column (150 x 2.1 mm). Solvents: 0.1% formic acid in water (A), 0.1% formic acid in acetonitrile (B). Elution gradient: 100 to 25% solvent B over 17 minutes, 0 to 70% solvent A over 20 minutes, at 21 minutes, B increases from 25% to 100% till 25 minutes while A decreases from 70% to 0% till 25 minutes. The last 4 minutes act as a wash. Total run time = 25 minute method (per sample)","CHROMATOGRAPHY_TYPE":"HILIC","INSTRUMENT_NAME":"Agilent 6538","COLUMN_NAME":"Cogent Diamond Hydride HILIC 150 × 2.1 mm column"},

"ANALYSIS":{"ANALYSIS_TYPE":"MS"},

"MS":{"INSTRUMENT_NAME":"Agilent 6538 QTOF","INSTRUMENT_TYPE":"Single quadrupole","MS_TYPE":"ESI","ION_MODE":"POSITIVE","MS_COMMENTS":"-","MS_RESULTS_FILE":"ST002147_AN003516_Results.txt UNITS:Peak Intensiy Has m/z:Yes Has RT:No RT units:No RT data"}

}