{
"METABOLOMICS WORKBENCH":{"STUDY_ID":"ST000074","ANALYSIS_ID":"AN000118","VERSION":"1","CREATED_ON":"2016-09-17"},
"PROJECT":{"PROJECT_TITLE":"Genetic effects of high fat diet on mouse fecal metabolomics","PROJECT_TYPE":"Analysis of fecal metabolite profiles of genetically diverse BXD mouse strains diets high or low in fat to elucidate the metabolism of the GI tract and","PROJECT_SUMMARY":"We will study expression of a large series of metabolites in fecal samples from genetically diverse set of mouse strains (BXD type). Separate cohorts of are maintained either on a 6% low fat diet or on a 60% high fat diet and at points during normal life span. We predict that these dietary differences will profound effects on the gastrointestinal (GI) tract and fecal metabolites, and the differences will be influenced strongly by genetic factors. We also expect fecal metabolite data will be a useful predictor of major outcome measures, as fat mass, longevity, and mitochondrial state. All metabolite data will be into the GeneNetwork web service for genetic analysis of the effects of and diet on GI tract metabolism.","INSTITUTE":"University of Tennessee","DEPARTMENT":"Department of Anatomy and Neurobiology, Health Science Center","LAST_NAME":"Williams","FIRST_NAME":"Rovert","ADDRESS":"855 Monroe Avenue, #515 LINK bldg, Memphis TN 38163 USA","EMAIL":"rwilliams@uthsc.edu","PHONE":"901-448-7050"},
"STUDY":{"STUDY_TITLE":"Genetic effects of high fat diet on mouse fecal metabolomics","STUDY_TYPE":"Metabolomics analysis on the effect of genetics and diet on the metabolism of GI tract and obesity","STUDY_SUMMARY":"This study includes 72 female mice with 4 mice from each of the 18 mice Two mice from each strain were fed a high fat diet and two mice were fed a fat diet. The 36 mice fed a normal fat diet will serve as the controls. All are age 27.6 weeks or older at the time of sacrifice. UPLC-MS data was for all 72 samples.","INSTITUTE":"RTI International","DEPARTMENT":"Discovery and Analytical Sciences (DAS)","LABORATORY":"RTI Regional Comprehensive Metabolomics Resource Core (RTI RCMRC)","LAST_NAME":"Sumner","FIRST_NAME":"Susan","ADDRESS":"3040 East Cornwallis Road, Research Triangle Park, NC 27709, USA","EMAIL":"ssumner@rti.org","PHONE":"919-541-7479","NUM_GROUPS":"36","TOTAL_SUBJECTS":"72"},
"SUBJECT":{"SUBJECT_TYPE":"Animal","SUBJECT_SPECIES":"Mus musculus","TAXONOMY_ID":"10090","GENOTYPE_STRAIN":"BXD genotype panel","AGE_OR_AGE_RANGE":"201-740 days","WEIGHT_OR_WEIGHT_RANGE":"19.67-76.2g","GENDER":"Female","ANIMAL_ANIMAL_SUPPLIER":"The Jackson Laboratory","ANIMAL_FEED":"Harlan Teklad 2018 (control) and 06414 (high fat)","SPECIES_GROUP":"Mammal"},
"SUBJECT_SAMPLE_FACTORS":[
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC1065",
"Factors":{"Genotype":"B6D2F1","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC1066",
"Factors":{"Genotype":"B6D2F1","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC1067",
"Factors":{"Genotype":"B6D2F1","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC1068",
"Factors":{"Genotype":"B6D2F1","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC687",
"Factors":{"Genotype":"BXD29","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC688",
"Factors":{"Genotype":"BXD29","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC617",
"Factors":{"Genotype":"BXD29","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC618",
"Factors":{"Genotype":"BXD29","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC254",
"Factors":{"Genotype":"BXD34","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC256",
"Factors":{"Genotype":"BXD34","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC253",
"Factors":{"Genotype":"BXD34","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC255",
"Factors":{"Genotype":"BXD34","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC117",
"Factors":{"Genotype":"BXD48","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC121",
"Factors":{"Genotype":"BXD48","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC538",
"Factors":{"Genotype":"BXD48","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC539",
"Factors":{"Genotype":"BXD48","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC649",
"Factors":{"Genotype":"BXD51","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC650",
"Factors":{"Genotype":"BXD51","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC548",
"Factors":{"Genotype":"BXD51","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC550",
"Factors":{"Genotype":"BXD51","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC700",
"Factors":{"Genotype":"BXD67","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC701",
"Factors":{"Genotype":"BXD67","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC365",
"Factors":{"Genotype":"BXD67","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC366",
"Factors":{"Genotype":"BXD67","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC910",
"Factors":{"Genotype":"BXD68","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC911",
"Factors":{"Genotype":"BXD68","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC912",
"Factors":{"Genotype":"BXD68","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC913",
"Factors":{"Genotype":"BXD68","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC541",
"Factors":{"Genotype":"BXD69","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC542",
"Factors":{"Genotype":"BXD69","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC524",
"Factors":{"Genotype":"BXD69","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC525",
"Factors":{"Genotype":"BXD69","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC246",
"Factors":{"Genotype":"BXD73b","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC248",
"Factors":{"Genotype":"BXD73b","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC722",
"Factors":{"Genotype":"BXD73b","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC724",
"Factors":{"Genotype":"BXD73b","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC131",
"Factors":{"Genotype":"BXD77","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC133",
"Factors":{"Genotype":"BXD77","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC130",
"Factors":{"Genotype":"BXD77","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC132",
"Factors":{"Genotype":"BXD77","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC768",
"Factors":{"Genotype":"BXD79","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC769",
"Factors":{"Genotype":"BXD79","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC532",
"Factors":{"Genotype":"BXD79","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC533",
"Factors":{"Genotype":"BXD79","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC587",
"Factors":{"Genotype":"BXD84","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC588",
"Factors":{"Genotype":"BXD84","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC509",
"Factors":{"Genotype":"BXD84","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC510",
"Factors":{"Genotype":"BXD84","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC274",
"Factors":{"Genotype":"BXD87","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC276",
"Factors":{"Genotype":"BXD87","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC497",
"Factors":{"Genotype":"BXD87","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC498",
"Factors":{"Genotype":"BXD87","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC697",
"Factors":{"Genotype":"BXD90","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC698",
"Factors":{"Genotype":"BXD90","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC681",
"Factors":{"Genotype":"BXD90","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC682",
"Factors":{"Genotype":"BXD90","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC820",
"Factors":{"Genotype":"BXD91","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC821",
"Factors":{"Genotype":"BXD91","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC818",
"Factors":{"Genotype":"BXD91","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC819",
"Factors":{"Genotype":"BXD91","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC342",
"Factors":{"Genotype":"BXD9","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC344",
"Factors":{"Genotype":"BXD9","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC345",
"Factors":{"Genotype":"BXD9","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC347",
"Factors":{"Genotype":"BXD9","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC482",
"Factors":{"Genotype":"C57BL/6J","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC483",
"Factors":{"Genotype":"C57BL/6J","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC477",
"Factors":{"Genotype":"C57BL/6J","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC478",
"Factors":{"Genotype":"C57BL/6J","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC988",
"Factors":{"Genotype":"DBA/2J","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_CTRL_FAC989",
"Factors":{"Genotype":"DBA/2J","Diet":"Control"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC986",
"Factors":{"Genotype":"DBA/2J","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"F_HFAT_FAC987",
"Factors":{"Genotype":"DBA/2J","Diet":"High-Fat"}
},
{
"Subject ID":"-",
"Sample ID":"FPALL_0001",
"Factors":{"Genotype":"--","Diet":"All Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPALL_0002",
"Factors":{"Genotype":"--","Diet":"All Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPALL_0003",
"Factors":{"Genotype":"--","Diet":"All Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPALL_0004",
"Factors":{"Genotype":"--","Diet":"All Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPALL_0005",
"Factors":{"Genotype":"--","Diet":"All Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPALL_0006",
"Factors":{"Genotype":"--","Diet":"All Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPCTRL0001",
"Factors":{"Genotype":"--","Diet":"Control-Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPCTRL0002",
"Factors":{"Genotype":"--","Diet":"Control-Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPCTRL0003",
"Factors":{"Genotype":"--","Diet":"Control-Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPCTRL0004",
"Factors":{"Genotype":"--","Diet":"Control-Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPCTRL0005",
"Factors":{"Genotype":"--","Diet":"Control-Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPCTRL0006",
"Factors":{"Genotype":"--","Diet":"Control-Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPHFAT0001",
"Factors":{"Genotype":"--","Diet":"High-Fat-Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPHFAT0002",
"Factors":{"Genotype":"--","Diet":"High-Fat-Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPHFAT0003",
"Factors":{"Genotype":"--","Diet":"High-Fat-Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPHFAT0004",
"Factors":{"Genotype":"--","Diet":"High-Fat-Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPHFAT0005",
"Factors":{"Genotype":"--","Diet":"High-Fat-Pool"}
},
{
"Subject ID":"-",
"Sample ID":"FPHFAT0006",
"Factors":{"Genotype":"--","Diet":"High-Fat-Pool"}
}
],
"COLLECTION":{"COLLECTION_SUMMARY":"-","SAMPLE_TYPE":"Feces"},
"TREATMENT":{"TREATMENT_SUMMARY":"-"},
"SAMPLEPREP":{"SAMPLEPREP_SUMMARY":"Samples were extracted using 95:5 water:methanol.","SAMPLEPREP_PROTOCOL_FILENAME":"RTI_WILLIAMS_Metabolomics_Procedure.docx","EXTRACTION_METHOD":"95:5 water:methanol","EXTRACT_STORAGE":"-80 C","SAMPLE_SPIKING":"L-Tryptophan-d5","ORGAN":"Feces"},
"CHROMATOGRAPHY":{"CHROMATOGRAPHY_TYPE":"Reversed phase","INSTRUMENT_NAME":"Waters Acquity","COLUMN_NAME":"Waters Acquity HSS T3 (100 x 2.1mm, 1.8um)","COLUMN_PRESSURE":"6000-10000","COLUMN_TEMPERATURE":"50 C","FLOW_GRADIENT":"Time(min) Flow Rate %A %B Curve 1. Initial 0.400 100.0 0.0 2. 0.400 100.0 0.0 6 3. 16.00 0.400 0.0 100.0 6 4. 20.00 0.400 0.0 100.0 5. 22.00 0.400 100.0 0.0 6","FLOW_RATE":"0.4 mL/min","INJECTION_TEMPERATURE":"8 C","INTERNAL_STANDARD":"L-Tryptophan-d5","SOLVENT_A":"Water w/ 0.1% formic acid","SOLVENT_B":"Methanol w/ 0.1% formic acid","ANALYTICAL_TIME":"22 min","WEAK_WASH_SOLVENT_NAME":"5%MeOH","WEAK_WASH_VOLUME":"1000 uL","STRONG_WASH_SOLVENT_NAME":"80%MeOH","STRONG_WASH_VOLUME":"1000 uL","TARGET_SAMPLE_TEMPERATURE":"8 C","SAMPLE_LOOP_SIZE":"10 uL","SAMPLE_SYRINGE_SIZE":"100 uL","RANDOMIZATION_ORDER":"Yes"},
"ANALYSIS":{"ANALYSIS_TYPE":"MS","LABORATORY_NAME":"RTI","SOFTWARE_VERSION":"MassLynx 4.1","OPERATOR_NAME":"Suraj Dhungana, Darya Cheng","DETECTOR_TYPE":"TOF (negative)"},
"MS":{"MS_COMMENTS":"-","INSTRUMENT_NAME":"Waters Synapt G2 QTOF","INSTRUMENT_TYPE":"QTOF","MS_TYPE":"ESI","ION_MODE":"NEGATIVE","CAPILLARY_TEMPERATURE":"110 C","CAPILLARY_VOLTAGE":"2.8 kV","COLLISION_ENERGY":"4","HELIUM_FLOW":"180","IONIZATION":"ES-","SOURCE_TEMPERATURE":"110 C","DATAFORMAT":"Continuum","DESOLVATION_GAS_FLOW":"400 L/Hr","DESOLVATION_TEMPERATURE":"400 C","RESOLUTION_SETTING":"18000","SCAN_RANGE_MOVERZ":"50-1000 m/z","SCANNING_CYCLE":"1 s","TUBE_LENS_VOLTAGE":"74"},
"MS_METABOLITE_DATA":{
"Units":"Normalized abundance",
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