{ "METABOLOMICS WORKBENCH":{"STUDY_ID":"ST001379","ANALYSIS_ID":"AN002299","VERSION":"1","CREATED_ON":"May 14, 2020, 11:08 am"}, "PROJECT":{"PROJECT_TITLE":"2,3,7,8 -Tetrachlorodibenzo-p-dioxin Mediated Effects on Metabolite Levels","PROJECT_TYPE":"Dioxin","PROJECT_SUMMARY":"Experiment to study TCDD-elicited effects on hepatic coenzyme A (CoA) and Acetyl-CoA levels in liver of male mice treated with sesame oil vehicle or 0.01-30 ug/kg TCDD every 4 days for 28 days.","INSTITUTE":"Michigan State University","DEPARTMENT":"Biochemistry and Molecular Biology","LABORATORY":"Zacharewski Lab","LAST_NAME":"Fling","FIRST_NAME":"Russell","ADDRESS":"1129 Farm Ln, East Lansing, MI, USA","EMAIL":"flingrus@msu.edu","PHONE":"(517) 884-2054","FUNDING_SOURCE":"NIH/NIEHS ES029541","PROJECT_COMMENTS":"FUNDING SOURCE: NIH/NIEHS;","PUBLICATIONS":"-","CONTRIBUTORS":"Russ Fling, Kelly A Fader, Claire M Doskey, Rance Nault, Tim Zacharewski"}, "STUDY":{"STUDY_TITLE":"2,3,7,8 -Tetrachlorodibenzo-p-dioxin Mediated Effects on Hepatic Coenzyme A (CoA) and Acetyl-CoA Levels (part-II)","STUDY_TYPE":"Dioxin","STUDY_SUMMARY":"Experiment to study TCDD-elicited effects on hepatic Coenzyme A (CoA) and Acetyl-CoA levels in liver of male mice treated with sesame oil vehicle or 0.01-30 ug/kg TCDD every 4 days for 28 days.","INSTITUTE":"Michigan State University","DEPARTMENT":"Biochemistry and Molecular Biology","LABORATORY":"Zacharewski Lab","LAST_NAME":"Fling","FIRST_NAME":"Russell","ADDRESS":"1129 Farm Ln, East Lansing, MI, USA","EMAIL":"flingrus@msu.edu","PHONE":"(517) 884-2054","NUM_GROUPS":"9","TOTAL_SUBJECTS":"80","NUM_MALES":"29","STUDY_COMMENTS":"Fax: (517) 353-9334; ORCID: 0000-0002-6822-4962; ROLE: Graduate Student; Pubmed ID: -;Publication DOI: -;","PUBLICATIONS":"-"}, "SUBJECT":{"SUBJECT_TYPE":"Mammal","SUBJECT_SPECIES":"Mus musculus","TAXONOMY_ID":"10090","GENOTYPE_STRAIN":"C57BL/6","AGE_OR_AGE_RANGE":"postnatal day 56","GENDER":"Male","ANIMAL_HOUSING":"Cage Type: Innovive, Catalog#M-BTM, San Diego, CA; Bedding Type: cellulose fiber chips;","ANIMAL_LIGHT_CYCLE":"12:12","ANIMAL_FEED":"22/5 Rodent Diet","ANIMAL_WATER":"Aquavive, Catalog#M-WB-300A, INNOVIVE, San Diego, CA"}, "SUBJECT_SAMPLE_FACTORS":[ { "Subject ID":"-", "Sample ID":"mouse_1", "Factors":{"TCDD treatment(ug/kg)":"vehicle"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_002.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_2", "Factors":{"TCDD treatment(ug/kg)":"vehicle"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_003.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_6", "Factors":{"TCDD treatment(ug/kg)":"vehicle"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_004.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_7", "Factors":{"TCDD treatment(ug/kg)":"vehicle"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_005.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_8", "Factors":{"TCDD treatment(ug/kg)":"vehicle"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_006.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_33", "Factors":{"TCDD treatment(ug/kg)":"0.3"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_007.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_34", "Factors":{"TCDD treatment(ug/kg)":"0.3"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_008.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_35", "Factors":{"TCDD treatment(ug/kg)":"0.3"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_009.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_37", "Factors":{"TCDD treatment(ug/kg)":"0.3"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_010.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_38", "Factors":{"TCDD treatment(ug/kg)":"0.3"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_011.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_42", "Factors":{"TCDD treatment(ug/kg)":"1"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_012.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_43", "Factors":{"TCDD treatment(ug/kg)":"1"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_013.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_44", "Factors":{"TCDD treatment(ug/kg)":"1"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_014.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_46", "Factors":{"TCDD treatment(ug/kg)":"1"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_015.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_48", "Factors":{"TCDD treatment(ug/kg)":"1"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_016.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_49", "Factors":{"TCDD treatment(ug/kg)":"3"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_017.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_50", "Factors":{"TCDD treatment(ug/kg)":"3"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_018.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_53", "Factors":{"TCDD treatment(ug/kg)":"3"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_019.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_56", "Factors":{"TCDD treatment(ug/kg)":"3"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_020.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_59", "Factors":{"TCDD treatment(ug/kg)":"3"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_021.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_60", "Factors":{"TCDD treatment(ug/kg)":"10"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_022.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_61", "Factors":{"TCDD treatment(ug/kg)":"10"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_023.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_63", "Factors":{"TCDD treatment(ug/kg)":"10"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_024.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_64", "Factors":{"TCDD treatment(ug/kg)":"10"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_025.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_65", "Factors":{"TCDD treatment(ug/kg)":"30"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_026.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_66", "Factors":{"TCDD treatment(ug/kg)":"30"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_027.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_67", "Factors":{"TCDD treatment(ug/kg)":"30"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_028.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_68", "Factors":{"TCDD treatment(ug/kg)":"30"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_029.raw"} }, { "Subject ID":"-", "Sample ID":"mouse_69", "Factors":{"TCDD treatment(ug/kg)":"30"}, "Additional sample data":{"Experiment Length":"28 days","RAW_FILE_NAME":"XS1_081417_030.raw"} } ], "COLLECTION":{"COLLECTION_SUMMARY":"Mice were taken down with CO2. Livers were excised and immediately frozen in liquid nitrogen.","COLLECTION_PROTOCOL_COMMENTS":"Time-point: 28; Time-point Unit: DAYS;","SAMPLE_TYPE":"Liver"}, "TREATMENT":{"TREATMENT_SUMMARY":"oral gavage every 4 days for 28 days. 7 total exposures with sesame oil vehicle or 0.3-30 ug/kg TCDD.","TREATMENT_PROTOCOL_COMMENTS":"Administration Interval: 4; Administration Interval Unit: DAYS; Dose Unit: ug/kg; Number of Administrations: 7; Chemical Soucre: AccuStandard; Chemical Catalog Number: S-70982; Chemical Purity: -; Vehicle Substance: CHEBI 28119","TREATMENT_ROUTE":"GAVAGE","TREATMENT_DOSE":"0.3,1,3,10,30","TREATMENT_DOSEVOLUME":"0.1 ml","TREATMENT_VEHICLE":"Sesame oil","ANIMAL_FASTING":"2 hrs before end-point","ANIMAL_ENDP_EUTHANASIA":"CO2","TREATMENT_COMPOUND":"2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD)"}, "SAMPLEPREP":{"SAMPLEPREP_SUMMARY":"Frozen liver tissue was homegenized in 4.6 ml h20:methanol (5:3) mixture and homegenized, 2.9 ml chloroform was added,vortexed and spun down at 5,000G. Top layer was removed and blown down with nitrogen and reconstituted in 400 l 10mM tetrabutylammonium (TBA)+10mM acetate (pH 5). A further 1:16 dilution was performed for analysis of acetyl-CoA. Coenzyme A (CoA) was measured by standard addition method by diluting with TBA containing CoA standard resulting in 1 uM CoA standard addition. 1 uM CoA standard addition samples are denoted in the subject sample factor section.","PROCESSING_METHOD":"Liquid extraction","PROCESSING_STORAGE_CONDITIONS":"-80℃"}, "CHROMATOGRAPHY":{"CHROMATOGRAPHY_TYPE":"Reversed phase","INSTRUMENT_NAME":"Waters Acquity","COLUMN_NAME":"Waters Ascentis Express C18 (2.1 X 5 cm)"}, "ANALYSIS":{"ANALYSIS_TYPE":"MS","OPERATOR_NAME":"Russ Fling"}, "MS":{"INSTRUMENT_NAME":"Waters Xevo G2 XS QTof","INSTRUMENT_TYPE":"TOF","MS_TYPE":"ESI","ION_MODE":"Negative","MS_COMMENTS":"Samples were run in MS^e mode. MassLynx V4.2 was used to measure area under the curve. Accurate mass and retention were used for identification of signal for respective metabolites.","MS_RESULTS_FILE":"ST001379_AN002299_Results.txt UNITS:normalized signal area Has m/z:Yes Has RT:Yes RT units:Minutes"} }