{
"METABOLOMICS WORKBENCH":{"STUDY_ID":"ST002956","ANALYSIS_ID":"AN004855","VERSION":"1","CREATED_ON":"November 1, 2023, 1:17 pm"},

"PROJECT":{"PROJECT_TITLE":"An application of automated LLE extraction in determine the age and HFD effects in adult mice in metabolomics, lipidomics, and proteomics","PROJECT_TYPE":"Method Development","PROJECT_SUMMARY":"We designed an automated liquid-liquid extraction method with minimal contamination and human intervention. This approach enables accurate and precise collection of metabolite, lipid fractions, and protein pellet from a small volume of mice plasma for multiomic analysis.","INSTITUTE":"Calico Life Sciences","DEPARTMENT":"Department of Mass Spectrometry-Technology Lab","LABORATORY":"Metabolomics Lab","LAST_NAME":"Vu","FIRST_NAME":"Ngoc","ADDRESS":"1130 Veterans BLVD, South San Francisco, CA 94080","EMAIL":"ngoc@calicolabs.com","PHONE":"6504205430","FUNDING_SOURCE":"Calico Life Sciences"},

"STUDY":{"STUDY_TITLE":"An application of automated LLE extraction in determine the age and HFD effects in adult mice in metabolomic, lipidomic, and proteomic","STUDY_TYPE":"Method Development","STUDY_SUMMARY":"We designed an automated liquid-liquid extraction method with minimal contamination and human intervention. This approach enables accurate and precise collection of metabolite, lipid fractions, and protein pellet from a small volume of mice plasma for multiomic analysis.","INSTITUTE":"Calico Life Sciences","DEPARTMENT":"Department of Mass Spectrometry-Technology Lab","LABORATORY":"Metabolomics Lab","LAST_NAME":"Vu","FIRST_NAME":"Ngoc","ADDRESS":"1130 Veterans BLVD","EMAIL":"ngoc@calicolabs.com","PHONE":"6504205430","NUM_GROUPS":"3","TOTAL_SUBJECTS":"90","NUM_MALES":"90"},

"SUBJECT":{"SUBJECT_TYPE":"Mammal","SUBJECT_SPECIES":"Mus musculus","TAXONOMY_ID":"10090","GENOTYPE_STRAIN":"C57BI/6","AGE_OR_AGE_RANGE":"8wks and 32 wks","GENDER":"Male","ANIMAL_ANIMAL_SUPPLIER":"Jackson Lab","ANIMAL_FEED":"Ad-Lib","ANIMAL_WATER":"Ad-Lib"},
"SUBJECT_SAMPLE_FACTORS":[
{
"Subject ID":"-",
"Sample ID":"1A1",
"Factors":{"group_mouse":"aY-M1","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #1- 8 weeks-first bleed","mouse":"M1","tube label":"1","name":"Young_Chow_M1_1","RAW_FILE_NAME":"1A1.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1A2",
"Factors":{"group_mouse":"aY-M2","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #2- 8 weeks-first bleed","mouse":"M2","tube label":"2","name":"Young_Chow_M2_1","RAW_FILE_NAME":"1A2.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1A3",
"Factors":{"group_mouse":"aY-M3","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #3- 8 weeks-first bleed","mouse":"M3","tube label":"3","name":"Young_Chow_M3_1","RAW_FILE_NAME":"1A3.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1A4",
"Factors":{"group_mouse":"aY-M4","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #4- 8 weeks-first bleed","mouse":"M4","tube label":"4","name":"Young_Chow_M4_1","RAW_FILE_NAME":"1A4.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1A5",
"Factors":{"group_mouse":"aY-M5","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #5- 8 weeks-first bleed","mouse":"M5","tube label":"5","name":"Young_Chow_M5_1","RAW_FILE_NAME":"1A5.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1A6",
"Factors":{"group_mouse":"aY-M6","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #6- 8 weeks-first bleed","mouse":"M6","tube label":"6","name":"Young_Chow_M6_1","RAW_FILE_NAME":"1A6.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1A7",
"Factors":{"group_mouse":"aY-M7","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #7- 8 weeks-first bleed","mouse":"M7","tube label":"7","name":"Young_Chow_M7_1","RAW_FILE_NAME":"1A7.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1A8",
"Factors":{"group_mouse":"aY-M8","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #8- 8 weeks-first bleed","mouse":"M8","tube label":"8","name":"Young_Chow_M8_1","RAW_FILE_NAME":"1A8.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1A9",
"Factors":{"group_mouse":"aY-M9","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #9- 8 weeks-first bleed","mouse":"M9","tube label":"9","name":"Young_Chow_M9_1","RAW_FILE_NAME":"1A9.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1A10",
"Factors":{"group_mouse":"aY-M10","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #10- 8 weeks-first bleed","mouse":"M10","tube label":"10","name":"Young_Chow_M10_1","RAW_FILE_NAME":"1A10.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1B1",
"Factors":{"group_mouse":"HFD-M1","Diet":"HFD","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #1- HFD-first bleed","mouse":"M1","tube label":"11","name":"Age_HFD_M1_1","RAW_FILE_NAME":"1B1.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1B2",
"Factors":{"group_mouse":"HFD-M2","Diet":"HFD","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #2- HFD-first bleed","mouse":"M2","tube label":"12","name":"Age_HFD_M2_1","RAW_FILE_NAME":"1B2.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1B3",
"Factors":{"group_mouse":"HFD-M3","Diet":"HFD","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #3- HFD-first bleed","mouse":"M3","tube label":"13","name":"Age_HFD_M3_1","RAW_FILE_NAME":"1B3.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1B4",
"Factors":{"group_mouse":"HFD-M4","Diet":"HFD","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #4- HFD-first bleed","mouse":"M4","tube label":"14","name":"Age_HFD_M4_1","RAW_FILE_NAME":"1B4.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1B5",
"Factors":{"group_mouse":"HFD-M5","Diet":"HFD","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #5- HFD-first bleed","mouse":"M5","tube label":"15","name":"Age_HFD_M5_1","RAW_FILE_NAME":"1B5.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1B6",
"Factors":{"group_mouse":"HFD-M6","Diet":"HFD","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #6- HFD-first bleed","mouse":"M6","tube label":"16","name":"Age_HFD_M6_1","RAW_FILE_NAME":"1B6.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1B7",
"Factors":{"group_mouse":"HFD-M7","Diet":"HFD","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #7- HFD-first bleed","mouse":"M7","tube label":"17","name":"Age_HFD_M7_1","RAW_FILE_NAME":"1B7.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1B8",
"Factors":{"group_mouse":"HFD-M8","Diet":"HFD","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #8- HFD-first bleed","mouse":"M8","tube label":"18","name":"Age_HFD_M8_1","RAW_FILE_NAME":"1B8.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1B9",
"Factors":{"group_mouse":"HFD-M9","Diet":"HFD","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #9- HFD-first bleed","mouse":"M9","tube label":"19","name":"Age_HFD_M9_1","RAW_FILE_NAME":"1B9.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1B10",
"Factors":{"group_mouse":"HFD-M10","Diet":"HFD","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #10- HFD-first bleed","mouse":"M10","tube label":"20","name":"Age_HFD_M10_1","RAW_FILE_NAME":"1B10.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1C1",
"Factors":{"group_mouse":"C-M1","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #1- LFD-first bleed","mouse":"M1","tube label":"21","name":"Age_Chow_M1_1","RAW_FILE_NAME":"1C1.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1C2",
"Factors":{"group_mouse":"C-M2","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #2- LFD-first bleed","mouse":"M2","tube label":"22","name":"Age_Chow_M2_1","RAW_FILE_NAME":"1C2.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1C3",
"Factors":{"group_mouse":"C-M3","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #3- LFD-first bleed","mouse":"M3","tube label":"23","name":"Age_Chow_M3_1","RAW_FILE_NAME":"1C3.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1C4",
"Factors":{"group_mouse":"C-M4","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #4- LFD-first bleed","mouse":"M4","tube label":"24","name":"Age_Chow_M4_1","RAW_FILE_NAME":"1C4.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1C5",
"Factors":{"group_mouse":"C-M5","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #5- LFD-first bleed","mouse":"M5","tube label":"25","name":"Age_Chow_M5_1","RAW_FILE_NAME":"1C5.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1C6",
"Factors":{"group_mouse":"C-M6","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #6- LFD-first bleed","mouse":"M6","tube label":"26","name":"Age_Chow_M6_1","RAW_FILE_NAME":"1C6.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1C7",
"Factors":{"group_mouse":"C-M7","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #7- LFD-first bleed","mouse":"M7","tube label":"27","name":"Age_Chow_M7_1","RAW_FILE_NAME":"1C7.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1C8",
"Factors":{"group_mouse":"C-M8","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #8- LFD-first bleed","mouse":"M8","tube label":"28","name":"Age_Chow_M8_1","RAW_FILE_NAME":"1C8.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1C9",
"Factors":{"group_mouse":"C-M9","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #9- LFD-first bleed","mouse":"M9","tube label":"29","name":"Age_Chow_M9_1","RAW_FILE_NAME":"1C9.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"1C10",
"Factors":{"group_mouse":"C-M10","Diet":"Chow","time point":"1"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #10- LFD-first bleed","mouse":"M10","tube label":"30","name":"Age_Chow_M10_1","RAW_FILE_NAME":"1C10.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2A1",
"Factors":{"group_mouse":"aY-M1","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #1- 8 weeks-second bleed","mouse":"M1","tube label":"31","name":"Young_Chow_M1_2","RAW_FILE_NAME":"2A1.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2A2",
"Factors":{"group_mouse":"aY-M2","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #2- 8 weeks-second bleed","mouse":"M2","tube label":"32","name":"Young_Chow_M2_2","RAW_FILE_NAME":"2A2.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2A3",
"Factors":{"group_mouse":"aY-M3","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #3- 8 weeks-second bleed","mouse":"M3","tube label":"33","name":"Young_Chow_M3_2","RAW_FILE_NAME":"2A3.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2A4",
"Factors":{"group_mouse":"aY-M4","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #4- 8 weeks-second bleed","mouse":"M4","tube label":"34","name":"Young_Chow_M4_2","RAW_FILE_NAME":"2A4.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2A5",
"Factors":{"group_mouse":"aY-M5","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #5- 8 weeks-second bleed","mouse":"M5","tube label":"35","name":"Young_Chow_M5_2","RAW_FILE_NAME":"2A5.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2A6",
"Factors":{"group_mouse":"aY-M6","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #6- 8 weeks-second bleed","mouse":"M6","tube label":"36","name":"Young_Chow_M6_2","RAW_FILE_NAME":"2A6.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2A7",
"Factors":{"group_mouse":"aY-M7","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #7- 8 weeks-second bleed","mouse":"M7","tube label":"37","name":"Young_Chow_M7_2","RAW_FILE_NAME":"2A7.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2A8",
"Factors":{"group_mouse":"aY-M8","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #8- 8 weeks-second bleed","mouse":"M8","tube label":"38","name":"Young_Chow_M8_2","RAW_FILE_NAME":"2A8.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2A9",
"Factors":{"group_mouse":"aY-M9","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #9- 8 weeks-second bleed","mouse":"M9","tube label":"39","name":"Young_Chow_M9_2","RAW_FILE_NAME":"2A9.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2A10",
"Factors":{"group_mouse":"aY-M10","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #10- 8 weeks-second bleed","mouse":"M10","tube label":"40","name":"Young_Chow_M10_2","RAW_FILE_NAME":"2A10.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2B1",
"Factors":{"group_mouse":"HFD-M1","Diet":"HFD","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #1- HFD-second bleed","mouse":"M1","tube label":"41","name":"Age_HFD_M1_2","RAW_FILE_NAME":"2B1.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2B2",
"Factors":{"group_mouse":"HFD-M2","Diet":"HFD","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #2- HFD-second bleed","mouse":"M2","tube label":"42","name":"Age_HFD_M2_2","RAW_FILE_NAME":"2B2.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2B3",
"Factors":{"group_mouse":"HFD-M3","Diet":"HFD","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #3- HFD-second bleed","mouse":"M3","tube label":"43","name":"Age_HFD_M3_2","RAW_FILE_NAME":"2B3.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2B4",
"Factors":{"group_mouse":"HFD-M4","Diet":"HFD","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #4- HFD-second bleed","mouse":"M4","tube label":"44","name":"Age_HFD_M4_2","RAW_FILE_NAME":"2B4.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2B5",
"Factors":{"group_mouse":"HFD-M5","Diet":"HFD","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #5- HFD-second bleed","mouse":"M5","tube label":"45","name":"Age_HFD_M5_2","RAW_FILE_NAME":"2B5.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2B6",
"Factors":{"group_mouse":"HFD-M6","Diet":"HFD","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #6- HFD-second bleed","mouse":"M6","tube label":"46","name":"Age_HFD_M6_2","RAW_FILE_NAME":"2B6.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2B7",
"Factors":{"group_mouse":"HFD-M7","Diet":"HFD","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #7- HFD-second bleed","mouse":"M7","tube label":"47","name":"Age_HFD_M7_2","RAW_FILE_NAME":"2B7.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2B8",
"Factors":{"group_mouse":"HFD-M8","Diet":"HFD","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #8- HFD-second bleed","mouse":"M8","tube label":"48","name":"Age_HFD_M8_2","RAW_FILE_NAME":"2B8.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2B9",
"Factors":{"group_mouse":"HFD-M9","Diet":"HFD","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #9- HFD-second bleed","mouse":"M9","tube label":"49","name":"Age_HFD_M9_2","RAW_FILE_NAME":"2B9.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2B10",
"Factors":{"group_mouse":"HFD-M10","Diet":"HFD","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #10- HFD-second bleed","mouse":"M10","tube label":"50","name":"Age_HFD_M10_2","RAW_FILE_NAME":"2B10.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2C1",
"Factors":{"group_mouse":"C-M1","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #1- LFD-second bleed","mouse":"M1","tube label":"51","name":"Age_Chow_M1_2","RAW_FILE_NAME":"2C1.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2C2",
"Factors":{"group_mouse":"C-M2","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #2- LFD-second bleed","mouse":"M2","tube label":"52","name":"Age_Chow_M2_2","RAW_FILE_NAME":"2C2.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2C3",
"Factors":{"group_mouse":"C-M3","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #3- LFD-second bleed","mouse":"M3","tube label":"53","name":"Age_Chow_M3_2","RAW_FILE_NAME":"2C3.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2C4",
"Factors":{"group_mouse":"C-M4","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #4- LFD-second bleed","mouse":"M4","tube label":"54","name":"Age_Chow_M4_2","RAW_FILE_NAME":"2C4.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2C5",
"Factors":{"group_mouse":"C-M5","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #5- LFD-second bleed","mouse":"M5","tube label":"55","name":"Age_Chow_M5_2","RAW_FILE_NAME":"2C5.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2C6",
"Factors":{"group_mouse":"C-M6","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #6- LFD-second bleed","mouse":"M6","tube label":"56","name":"Age_Chow_M6_2","RAW_FILE_NAME":"2C6.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2C7",
"Factors":{"group_mouse":"C-M7","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #7- LFD-second bleed","mouse":"M7","tube label":"57","name":"Age_Chow_M7_2","RAW_FILE_NAME":"2C7.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2C8",
"Factors":{"group_mouse":"C-M8","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #8- LFD-second bleed","mouse":"M8","tube label":"58","name":"Age_Chow_M8_2","RAW_FILE_NAME":"2C8.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2C9",
"Factors":{"group_mouse":"C-M9","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #9- LFD-second bleed","mouse":"M9","tube label":"59","name":"Age_Chow_M9_2","RAW_FILE_NAME":"2C9.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"2C10",
"Factors":{"group_mouse":"C-M10","Diet":"Chow","time point":"2"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #10- LFD-second bleed","mouse":"M10","tube label":"60","name":"Age_Chow_M10_2","RAW_FILE_NAME":"2C10.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3A1",
"Factors":{"group_mouse":"aY-M1","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #1- 8 weeks-third bleed","mouse":"M1","tube label":"61","name":"Young_Chow_M1_3","RAW_FILE_NAME":"3A1.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3A2",
"Factors":{"group_mouse":"aY-M2","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #2- 8 weeks-third bleed","mouse":"M2","tube label":"62","name":"Young_Chow_M2_3","RAW_FILE_NAME":"3A2.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3A3",
"Factors":{"group_mouse":"aY-M3","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #3- 8 weeks-third bleed","mouse":"M3","tube label":"63","name":"Young_Chow_M3_3","RAW_FILE_NAME":"3A3.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3A4",
"Factors":{"group_mouse":"aY-M4","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #4- 8 weeks-third bleed","mouse":"M4","tube label":"64","name":"Young_Chow_M4_3","RAW_FILE_NAME":"3A4.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3A5",
"Factors":{"group_mouse":"aY-M5","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #5- 8 weeks-third bleed","mouse":"M5","tube label":"65","name":"Young_Chow_M5_3","RAW_FILE_NAME":"3A5.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3A6",
"Factors":{"group_mouse":"aY-M6","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #6- 8 weeks-third bleed","mouse":"M6","tube label":"66","name":"Young_Chow_M6_3","RAW_FILE_NAME":"3A6.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3A7",
"Factors":{"group_mouse":"aY-M7","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #7- 8 weeks-third bleed","mouse":"M7","tube label":"67","name":"Young_Chow_M7_3","RAW_FILE_NAME":"3A7.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3A8",
"Factors":{"group_mouse":"aY-M8","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #8- 8 weeks-third bleed","mouse":"M8","tube label":"68","name":"Young_Chow_M8_3","RAW_FILE_NAME":"3A8.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3A9",
"Factors":{"group_mouse":"aY-M9","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #9- 8 weeks-third bleed","mouse":"M9","tube label":"69","name":"Young_Chow_M9_3","RAW_FILE_NAME":"3A9.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3A10",
"Factors":{"group_mouse":"aY-M10","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Young","Subject_ID":"mouse #10- 8 weeks-third bleed","mouse":"M10","tube label":"70","name":"Young_Chow_M10_3","RAW_FILE_NAME":"3A10.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3B1",
"Factors":{"group_mouse":"HFD-M1","Diet":"HFD","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #1- HFD-third bleed","mouse":"M1","tube label":"71","name":"Age_HFD_M1_3","RAW_FILE_NAME":"3B1.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3B2",
"Factors":{"group_mouse":"HFD-M2","Diet":"HFD","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #2- HFD-third bleed","mouse":"M2","tube label":"72","name":"Age_HFD_M2_3","RAW_FILE_NAME":"3B2.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3B3",
"Factors":{"group_mouse":"HFD-M3","Diet":"HFD","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #3- HFD-third bleed","mouse":"M3","tube label":"73","name":"Age_HFD_M3_3","RAW_FILE_NAME":"3B3.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3B4",
"Factors":{"group_mouse":"HFD-M4","Diet":"HFD","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #4- HFD-third bleed","mouse":"M4","tube label":"74","name":"Age_HFD_M4_3","RAW_FILE_NAME":"3B4.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3B5",
"Factors":{"group_mouse":"HFD-M5","Diet":"HFD","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #5- HFD-third bleed","mouse":"M5","tube label":"75","name":"Age_HFD_M5_3","RAW_FILE_NAME":"3B5.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3B6",
"Factors":{"group_mouse":"HFD-M6","Diet":"HFD","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #6- HFD-third bleed","mouse":"M6","tube label":"76","name":"Age_HFD_M6_3","RAW_FILE_NAME":"3B6.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3B7",
"Factors":{"group_mouse":"HFD-M7","Diet":"HFD","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #7- HFD-third bleed","mouse":"M7","tube label":"77","name":"Age_HFD_M7_3","RAW_FILE_NAME":"3B7.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3B8",
"Factors":{"group_mouse":"HFD-M8","Diet":"HFD","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #8- HFD-third bleed","mouse":"M8","tube label":"78","name":"Age_HFD_M8_3","RAW_FILE_NAME":"3B8.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3B9",
"Factors":{"group_mouse":"HFD-M9","Diet":"HFD","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #9- HFD-third bleed","mouse":"M9","tube label":"79","name":"Age_HFD_M9_3","RAW_FILE_NAME":"3B9.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3B10",
"Factors":{"group_mouse":"HFD-M10","Diet":"HFD","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #10- HFD-third bleed","mouse":"M10","tube label":"80","name":"Age_HFD_M10_3","RAW_FILE_NAME":"3B10.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3C1",
"Factors":{"group_mouse":"C-M1","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #1- LFD-third bleed","mouse":"M1","tube label":"81","name":"Age_Chow_M1_3","RAW_FILE_NAME":"3C1.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3C2",
"Factors":{"group_mouse":"C-M2","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #2- LFD-third bleed","mouse":"M2","tube label":"82","name":"Age_Chow_M2_3","RAW_FILE_NAME":"3C2.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3C3",
"Factors":{"group_mouse":"C-M3","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #3- LFD-third bleed","mouse":"M3","tube label":"83","name":"Age_Chow_M3_3","RAW_FILE_NAME":"3C3.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3C4",
"Factors":{"group_mouse":"C-M4","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #4- LFD-third bleed","mouse":"M4","tube label":"84","name":"Age_Chow_M4_3","RAW_FILE_NAME":"3C4.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3C5",
"Factors":{"group_mouse":"C-M5","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #5- LFD-third bleed","mouse":"M5","tube label":"85","name":"Age_Chow_M5_3","RAW_FILE_NAME":"3C5.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3C6",
"Factors":{"group_mouse":"C-M6","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #6- LFD-third bleed","mouse":"M6","tube label":"86","name":"Age_Chow_M6_3","RAW_FILE_NAME":"3C6.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3C7",
"Factors":{"group_mouse":"C-M7","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #7- LFD-third bleed","mouse":"M7","tube label":"87","name":"Age_Chow_M7_3","RAW_FILE_NAME":"3C7.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3C8",
"Factors":{"group_mouse":"C-M8","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #8- LFD-third bleed","mouse":"M8","tube label":"88","name":"Age_Chow_M8_3","RAW_FILE_NAME":"3C8.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3C9",
"Factors":{"group_mouse":"C-M9","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #9- LFD-third bleed","mouse":"M9","tube label":"89","name":"Age_Chow_M9_3","RAW_FILE_NAME":"3C9.mzML"}
},
{
"Subject ID":"-",
"Sample ID":"3C10",
"Factors":{"group_mouse":"C-M10","Diet":"Chow","time point":"3"},
"Additional sample data":{"Age":"Age","Subject_ID":"mouse #10- LFD-third bleed","mouse":"M10","tube label":"90","name":"Age_Chow_M10_3","RAW_FILE_NAME":"3C10.mzML"}
}
],
"COLLECTION":{"COLLECTION_SUMMARY":"Each mouse was fasted four hours prior to each of three retro orbital bleeds performed over three weeks at 10 AM (Time point 1- Z10), 10 PM (Time point 2- Z22), and 3 PM (Time point 3- Z15). Blood was collected into BD microtainer tubes with K2E (K2EDTA), mixed briefly, and stored on ice. All samples were centrifuged at 7000 RCF for 4 mins at 4°C to separate blood plasma. Plasma was aliquoted in 50 µL increments, immediately frozen on dry ice, and stored at -80C for later analysis.","COLLECTION_PROTOCOL_ID":"A00003888","COLLECTION_PROTOCOL_FILENAME":"NIH Guide for the Care and Use of Laboratory Animals","SAMPLE_TYPE":"Blood (plasma)","COLLECTION_METHOD":"retro bleed","COLLECTION_LOCATION":"Calico Life Sciences","COLLECTION_FREQUENCY":"every week","STORAGE_CONDITIONS":"-80℃","COLLECTION_VIALS":"BD microcontainer tube with K2E"},

"TREATMENT":{"TREATMENT_SUMMARY":"Ten male C57BL/6 mice (Jackson Laboratory, USA) were selected for each of three groups, to minimize variance in body weight, and eliminate animals that had fighting wounded. Groups of 8-week-old and 24-week-old mice were fed a standard lab chow diet (Chow diet 5LOD, LabDiet ) and a second group of 24-week-old mice fed 10 weeks of a high-fat diet (HFD) containing 60% fat (D12492, Research Diets Inc.).","TREATMENT":"HFD","ANIMAL_FASTING":"4 hours prior to sample collections"},

"SAMPLEPREP":{"SAMPLEPREP_SUMMARY":"This method is based on the protocol Matyash et al. 2008. (Matyash et al. 2008). Briefly, lipid standards mixture (volumes as described in results) were extracted by addition of 50% methanol (pre-cooled to -20°C), vortexed for 30 sec, and incubated on ice for 10 min. The same volume of room temperature MTBE was added, and the samples were vortexed on the max setting for 30 sec before centrifuging at 3000 x g for 5 min at 4°C for a complete phase-separation (Eppendorf R5010 centrifuge with swinging bucket rotor). The maximum volume of the upper organic phase was pipetted off by hand with a Hamilton glass syringe until the meniscus of the two phases was reached. The organic phase was then transferred to a new ice-cold glass sample vial. The remaining sample volume was subjected to a secondary extraction using MTBE or other chemicals described in the results section. Then, the second organic phase was removed, combining this volume with the first organic phase extraction. All sample transfers involving MTBE-containing solutions were performed with glass syringes rinsed twice with MTBE and MeOH, between preparation steps. Following both MTBE extractions, the lower aqueous phase extract was pipetted off with the necessary care not to pick up the remaining upper phase or disturb the protein pellet. The fraction was subsequently transferred into a separate ice-cold sample vial. The phase extracts were then evaporated to dryness under nitrogen flow at 4°C and stored at -80°C.","SAMPLEPREP_PROTOCOL_ID":"A00003888","SAMPLEPREP_PROTOCOL_FILENAME":"NIH Guide for the Care and Use of Laboratory Animals","PROCESSING_STORAGE_CONDITIONS":"On ice"},

"CHROMATOGRAPHY":{"CHROMATOGRAPHY_SUMMARY":"HILIC method for Metabolomics","CHROMATOGRAPHY_TYPE":"HILIC","INSTRUMENT_NAME":"Thermo Vanquish","COLUMN_NAME":"SeQuant ZIC- pHILIC (150 x 2.1mm,5um)","SOLVENT_A":"20 mM ammonium carbonate in water (pH 9.2)","SOLVENT_B":"100% MeCN","FLOW_GRADIENT":"t = −6, 80% B; t = 0, 80% B; t = 2.5, 73% B; t = 5, 65% B, t = 7.5, 57% B; t = 10, 50% B; t = 15, 35% B; t = 20; 20% B; t = 22, 15% B; t = 22.5, 80% B; t = 24; 80% B.","FLOW_RATE":"150uL/min","COLUMN_TEMPERATURE":"35"},

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

"MS":{"INSTRUMENT_NAME":"Thermo Q Exactive Plus Orbitrap","INSTRUMENT_TYPE":"Orbitrap","MS_TYPE":"ESI","ION_MODE":"POSITIVE","MS_COMMENTS":"The mass spectrometer was operated in positive ion mode using data-dependent acquisition (DDA) mode with the following parameters: resolution = 70,000, AGC target = 3.00E + 06, maximum IT (ms) = 100, scan range = 70–1050. The MS2 parameters were as follows: resolution = 17,500, AGC target = 1.00E + 05, maximum IT (ms) = 50, loop count = 6, isolation window (m/z) = 1, (N)CE = 20, 40, 80; underfill ratio = 1.00%, Apex trigger(s) = 3–10, dynamic exclusion(s) = 25"},

"MS_METABOLITE_DATA":{
"Units":"Log2(Top Peak Area)",

"Data":[{"Metabolite":"(S)-b-aminoisobutyric 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