#METABOLOMICS WORKBENCH michaelsa93_20170719_105604 DATATRACK_ID:1151 STUDY_ID:ST000800 ANALYSIS_ID:AN001272 PROJECT_ID:PR000576 VERSION 1 CREATED_ON July 20, 2017, 12:56 pm #PROJECT PR:PROJECT_TITLE Insights into myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) PR:PROJECT_TITLE phenotypes through comprehensive metabolomics PR:PROJECT_SUMMARY The pathogenesis of ME/CFS, a disease characterized by unexplained debilitating PR:PROJECT_SUMMARY fatigue, cognitive dysfunction, sleep disturbances, orthostatic intolerance, PR:PROJECT_SUMMARY fever, lymphadenopathy and irritable bowel syndrome (IBS), is poorly understood. PR:PROJECT_SUMMARY There are no validated diagnostic tests or interventions to mitigate disease. PR:PROJECT_SUMMARY Here we report association modeling, biomarker discovery, biochemical enrichment PR:PROJECT_SUMMARY analysis and topological network visualization of plasma metabolomic, fecal PR:PROJECT_SUMMARY bacterial metagenomic and clinical data from 50 ME/CFS patients and 50 healthy PR:PROJECT_SUMMARY controls. PR:INSTITUTE Columbia University PR:DEPARTMENT Center for Infection and Immunity, Mailman School of Public Health PR:LAST_NAME Lipkin PR:FIRST_NAME Ian PR:ADDRESS 722 West 168th Street, Room 1703a, New York, NY USA 10032 PR:EMAIL wil2001@columbia.edu PR:PHONE 212-342-9044 #STUDY ST:STUDY_TITLE Insights into myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) ST:STUDY_TITLE phenotypes through comprehensive metabolomics ST:STUDY_TYPE Observational ST:STUDY_SUMMARY The pathogenesis of ME/CFS, a disease characterized by unexplained debilitating ST:STUDY_SUMMARY fatigue, cognitive dysfunction, sleep disturbances, orthostatic intolerance, ST:STUDY_SUMMARY fever, lymphadenopathy and irritable bowel syndrome (IBS), is poorly understood. ST:STUDY_SUMMARY There are no validated diagnostic tests or interventions to mitigate disease. ST:STUDY_SUMMARY Here we report association modeling, biomarker discovery, biochemical enrichment ST:STUDY_SUMMARY analysis and topological network visualization of plasma metabolomic, fecal ST:STUDY_SUMMARY bacterial metagenomic and clinical data from 50 ME/CFS patients and 50 healthy ST:STUDY_SUMMARY controls. Through targeted and untargeted metabolomics analyses we confirm ST:STUDY_SUMMARY earlier reports of specific alterations in plasma levels of choline, carnitine ST:STUDY_SUMMARY and complex lipid metabolism in ME/CFS. We also demonstrate that patients with ST:STUDY_SUMMARY ME/CFS and IBS have a unique metabolomic profile that includes increased plasma ST:STUDY_SUMMARY levels of ceramide, a waxy lipid implicated in suppression of electron ST:STUDY_SUMMARY transport, insulin and leptin resistance and apoptosis. Integration of fecal ST:STUDY_SUMMARY metagenomic and plasma metabolomic data resulted in a stronger predictive model ST:STUDY_SUMMARY of ME/CFS (cross-validated AUC=0.836) than either metagenomic (cross-validated ST:STUDY_SUMMARY AUC=0.745) or metabolomic (cross-validated AUC=0.820) analysis alone. Our ST:STUDY_SUMMARY findings may provide insights into the pathogenesis of ME/CFS and ME/CFS ST:STUDY_SUMMARY subtypes, and suggest pathways for the development of diagnostic and therapeutic ST:STUDY_SUMMARY strategies. ST:INSTITUTE University of California, Davis ST:DEPARTMENT Genome and Biomedical Sciences Facility ST:LABORATORY WCMC Metabolomics Core ST:LAST_NAME Fiehn ST:FIRST_NAME Oliver ST:ADDRESS 1315 Genome and Biomedical Sciences Facility, 451 Health Sciences Drive, Davis, ST:ADDRESS CA 95616 ST:EMAIL ofiehn@ucdavis.edu ST:PHONE (530) 754-8258 ST:STUDY_COMMENTS Key: mecfs : 1 in this column indicates case, while 0 indicates control Ibs: 1 ST:STUDY_COMMENTS in this column indicates the patient does have disease, 0 indicates free of ibs #SUBJECT SU:SUBJECT_TYPE Human SU:SUBJECT_SPECIES Homo sapiens SU:TAXONOMY_ID 9606 #SUBJECT_SAMPLE_FACTORS: SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Additional sample data SUBJECT_SAMPLE_FACTORS Biorec003_CSH_tLipkin020.d Biorec003 CaseStatus:- | SEX:- | AGE_DICH:- BMI_DICH=-; height (in.)=-; weight (lbs.)=-; bmi=-; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Biorec004_CSH_tLipkin030.d Biorec004 CaseStatus:- | SEX:- | AGE_DICH:- BMI_DICH=-; height (in.)=-; weight (lbs.)=-; bmi=-; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Biorec005_CSH_tLipkin040.d Biorec005 CaseStatus:- | SEX:- | AGE_DICH:- BMI_DICH=-; height (in.)=-; weight (lbs.)=-; bmi=-; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Biorec006_CSH_tLipkin050.d Biorec006 CaseStatus:- | SEX:- | AGE_DICH:- BMI_DICH=-; height (in.)=-; weight (lbs.)=-; bmi=-; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Biorec007_CSH_tLipkin060.d Biorec007 CaseStatus:- | SEX:- | AGE_DICH:- BMI_DICH=-; height (in.)=-; weight (lbs.)=-; bmi=-; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Biorec010_CSH_tLipkin090.d Biorec010 CaseStatus:- | SEX:- | AGE_DICH:- BMI_DICH=-; height (in.)=-; weight (lbs.)=-; bmi=-; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Biorec011_CSH_tLipkin0102.d Biorec011 CaseStatus:- | SEX:- | AGE_DICH:- BMI_DICH=-; height (in.)=-; weight (lbs.)=-; bmi=-; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin072_CSH_ESP-0007_001.d ESP-0007 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=70; weight (lbs.)=154; bmi=22.09; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin085_CSH_ESP-0020_002.d ESP-0020 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=70; weight (lbs.)=230; bmi=33; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin027_CSH_ESP-0033_003.d ESP-0033 CaseStatus:Case | SEX:Male | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=75; weight (lbs.)=252; bmi=31.49; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin081_CSH_ESP-0046_004.d ESP-0046 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=61; weight (lbs.)=148; bmi=27.96; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin034_CSH_ESP-0059_005.d ESP-0059 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=68; weight (lbs.)=140; bmi=21.28; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin065_CSH_ESP-0072_006.d ESP-0072 CaseStatus:Case | SEX:Male | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=76; weight (lbs.)=206; bmi=25.07; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin029_CSH_ESP-0085_007.d ESP-0085 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=64; weight (lbs.)=175; bmi=30.04; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin048_CSH_ESP-0098_008.d ESP-0098 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=58; weight (lbs.)=130; bmi=27.17; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin047_CSH_ESP-0111_009.d ESP-0111 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=67; weight (lbs.)=165.4; bmi=25.9; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin069_CSH_ESP-0124_010.d ESP-0124 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=65; weight (lbs.)=143; bmi=23.79; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin038_CSH_ESP-0137_011.d ESP-0137 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=72; weight (lbs.)=147; bmi=19.93; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin050_CSH_ESP-0150_012.d ESP-0150 CaseStatus:Control | SEX:Male | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=68; weight (lbs.)=158; bmi=24.02; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin096_CSH_ESP-0163_013.d ESP-0163 CaseStatus:Control | SEX:Male | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=72; weight (lbs.)=178; bmi=24.14; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin037_CSH_ESP-0176_014.d ESP-0176 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=67; weight (lbs.)=125; bmi=19.58; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin049_CSH_ESP-0189_015.d ESP-0189 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=64; weight (lbs.)=200; bmi=34.33; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin063_CSH_ESP-0202_016.d ESP-0202 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=62; weight (lbs.)=140; bmi=25.6; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin083_CSH_ESP-0215_017.d ESP-0215 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=64; weight (lbs.)=150; bmi=25.74; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin057_CSH_ESP-0228_018.d ESP-0228 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=64; weight (lbs.)=124.6; bmi=21.39; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin074_CSH_ESP-0241_019.d ESP-0241 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=62.5; weight (lbs.)=180; bmi=32.39; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin062_CSH_ESP-0254_020.d ESP-0254 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=64; weight (lbs.)=118; bmi=20.25; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin076_CSH_ESP-0267_021.d ESP-0267 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=63; weight (lbs.)=156; bmi=27.63; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin101_CSH_ESP-0280_022.d ESP-0280 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=69; weight (lbs.)=207; bmi=30.57; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin039_CSH_ESP-0293_023.d ESP-0293 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=61; weight (lbs.)=160; bmi=30.23; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin056_CSH_ESP-0306_024.d ESP-0306 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=67; weight (lbs.)=230; bmi=36.02; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin064_CSH_ESP-0319_025.d ESP-0319 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=62; weight (lbs.)=120; bmi=21.95; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin095_CSH_ESP-0332_026.d ESP-0332 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=68.5; weight (lbs.)=140.5; bmi=21.05; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin013_CSH_ESP-0345_027.d ESP-0345 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=67; weight (lbs.)=145; bmi=22.71; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin017_CSH_ESP-0358_028.d ESP-0358 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=65; weight (lbs.)=128.8; bmi=21.43; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin002_CSH_ESP-0371_029.d ESP-0371 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=62; weight (lbs.)=231; bmi=42.25; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin001_CSH_ESP-0384_030.d ESP-0384 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=65; weight (lbs.)=159; bmi=26.46; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin021_CSH_ESP-0397_031.d ESP-0397 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=71; weight (lbs.)=149; bmi=20.78; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin044_CSH_ESP-0410_032.d ESP-0410 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=60; weight (lbs.)=157.4; bmi=30.74; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin032_CSH_ESP-0423_033.d ESP-0423 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=64; weight (lbs.)=166.4; bmi=28.56; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin094_CSH_ESP-0436_034.d ESP-0436 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=63; weight (lbs.)=122; bmi=21.61; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin042_CSH_ESP-0449_035.d ESP-0449 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=63; weight (lbs.)=170; bmi=30.11; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin007_CSH_ESP-0462_036.d ESP-0462 CaseStatus:Case | SEX:Male | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=68; weight (lbs.)=189; bmi=28.73; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin082_CSH_ESP-0475_037.d ESP-0475 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=64; weight (lbs.)=142; bmi=24.37; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin004_CSH_ESP-0488_038.d ESP-0488 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=63; weight (lbs.)=150; bmi=26.57; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin024_CSH_ESP-0501_039.d ESP-0501 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=64; weight (lbs.)=160; bmi=27.46; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin073_CSH_ESP-0514_040.d ESP-0514 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=65; weight (lbs.)=144; bmi=23.96; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin033_CSH_ESP-0527_041.d ESP-0527 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=65; weight (lbs.)=120; bmi=19.97; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin019_CSH_ESP-0540_042.d ESP-0540 CaseStatus:Control | SEX:Male | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=72; weight (lbs.)=160; bmi=21.7; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin071_CSH_ESP-0553_043.d ESP-0553 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=64; weight (lbs.)=153; bmi=26.26; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin005_CSH_ESP-0566_044.d ESP-0566 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=68; weight (lbs.)=168; bmi=25.54; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin053_CSH_ESP-0579_045.d ESP-0579 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=65; weight (lbs.)=135; bmi=22.46; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin035_CSH_ESP-0592_046.d ESP-0592 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=64; weight (lbs.)=150; bmi=25.74; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin089_CSH_ESP-0605_047.d ESP-0605 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=61; weight (lbs.)=96.6; bmi=18.25; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin043_CSH_ESP-0618_048.d ESP-0618 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=61; weight (lbs.)=120; bmi=22.67; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin023_CSH_ESP-0631_049.d ESP-0631 CaseStatus:Control | SEX:Male | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=72; weight (lbs.)=194; bmi=26.31; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin020_CSH_ESP-0644_050.d ESP-0644 CaseStatus:Case | SEX:Male | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=67.5; weight (lbs.)=160; bmi=24.69; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin092_CSH_ESP-0657_051.d ESP-0657 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=61; weight (lbs.)=137.8; bmi=26.03; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin009_CSH_ESP-0670_052.d ESP-0670 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=63; weight (lbs.)=175.8; bmi=31.14; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin040_CSH_ESP-0683_053.d ESP-0683 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=67; weight (lbs.)=125; bmi=19.58; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin012_CSH_ESP-0696_054.d ESP-0696 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=67; weight (lbs.)=194.6; bmi=30.48; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin080_CSH_ESP-0709_055.d ESP-0709 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=63; weight (lbs.)=132; bmi=23.38; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin028_CSH_ESP-0722_056.d ESP-0722 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=66; weight (lbs.)=205; bmi=33.08; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin077_CSH_ESP-0735_057.d ESP-0735 CaseStatus:Control | SEX:Male | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=71; weight (lbs.)=175; bmi=24.4; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin099_CSH_ESP-0748_058.d ESP-0748 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=65; weight (lbs.)=130; bmi=21.63; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin054_CSH_ESP-0761_059.d ESP-0761 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=58.8; weight (lbs.)=115; bmi=23.38; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin088_CSH_ESP-0774_060.d ESP-0774 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=66; weight (lbs.)=138; bmi=22.27; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin097_CSH_ESP-0787_061.d ESP-0787 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=64; weight (lbs.)=158; bmi=27.12; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin078_CSH_ESP-0800_062.d ESP-0800 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=66; weight (lbs.)=138; bmi=22.27; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin008_CSH_ESP-0813_063.d ESP-0813 CaseStatus:Case | SEX:Male | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=70; weight (lbs.)=185; bmi=26.54; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin066_CSH_ESP-0826_064.d ESP-0826 CaseStatus:Case | SEX:Male | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=67; weight (lbs.)=195; bmi=30.54; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin018_CSH_ESP-0839_065.d ESP-0839 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=72; weight (lbs.)=179; bmi=24.27; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin058_CSH_ESP-0852_066.d ESP-0852 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=68; weight (lbs.)=217; bmi=32.99; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin016_CSH_ESP-0865_067.d ESP-0865 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=65; weight (lbs.)=124; bmi=20.63; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin051_CSH_ESP-0878_068.d ESP-0878 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=67; weight (lbs.)=192.2; bmi=30.1; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin068_CSH_ESP-0891_069.d ESP-0891 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=63.5; weight (lbs.)=219; bmi=38.18; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin011_CSH_ESP-0904_070.d ESP-0904 CaseStatus:Case | SEX:Male | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=68; weight (lbs.)=164; bmi=24.93; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin059_CSH_ESP-0917_071.d ESP-0917 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=65; weight (lbs.)=178; bmi=29.62; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin014_CSH_ESP-0930_072.d ESP-0930 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=66; weight (lbs.)=140; bmi=22.59; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin100_CSH_ESP-0943_073.d ESP-0943 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=68; weight (lbs.)=150; bmi=22.8; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin046_CSH_ESP-0956_074.d ESP-0956 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=61; weight (lbs.)=146; bmi=27.58; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin060_CSH_ESP-0969_075.d ESP-0969 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=62; weight (lbs.)=136; bmi=24.87; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin075_CSH_ESP-0982_076.d ESP-0982 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=66; weight (lbs.)=154; bmi=24.85; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin093_CSH_ESP-0995_077.d ESP-0995 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=67.5; weight (lbs.)=140; bmi=21.6; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin086_CSH_ESP-1008_078.d ESP-1008 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=60; weight (lbs.)=140; bmi=27.34; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin067_CSH_ESP-1021_079.d ESP-1021 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=64; weight (lbs.)=135; bmi=23.17; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin091_CSH_ESP-1034_080.d ESP-1034 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=64; weight (lbs.)=218; bmi=37.42; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin055_CSH_ESP-1047_081.d ESP-1047 CaseStatus:Case | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=62; weight (lbs.)=115; bmi=21.03; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin070_CSH_ESP-1060_082.d ESP-1060 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=64; weight (lbs.)=130; bmi=22.31; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin003_CSH_ESP-1073_083.d ESP-1073 CaseStatus:Control | SEX:Male | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=65; weight (lbs.)=180; bmi=29.95; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin006_CSH_ESP-1086_084.d ESP-1086 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=68; weight (lbs.)=143; bmi=21.74; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin045_CSH_ESP-1099_085.d ESP-1099 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=61; weight (lbs.)=120; bmi=22.67; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin031_CSH_ESP-1112_086.d ESP-1112 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=64; weight (lbs.)=149; bmi=25.57; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin087_CSH_ESP-1125_087.d ESP-1125 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=69; weight (lbs.)=234; bmi=34.55; MECFS=1; IBS=1 SUBJECT_SAMPLE_FACTORS Lipkin102_CSH_ESP-1138_088.d ESP-1138 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=70; weight (lbs.)=208; bmi=29.84; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin079_CSH_ESP-1151_089.d ESP-1151 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=65.5; weight (lbs.)=150.2; bmi=24.61; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin061_CSH_ESP-1164_090.d ESP-1164 CaseStatus:Case | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=65; weight (lbs.)=177; bmi=29.45; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin090_CSH_ESP-1177_091.d ESP-1177 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Overweight.Obese; height (in.)=63; weight (lbs.)=162.6; bmi=28.8; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin015_CSH_ESP-1190_092.d ESP-1190 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=63; weight (lbs.)=130; bmi=23.03; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin026_CSH_ESP-1203_093.d ESP-1203 CaseStatus:Case | SEX:Male | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=71; weight (lbs.)=215; bmi=29.98; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin052_CSH_ESP-1216_094.d ESP-1216 CaseStatus:Control | SEX:Male | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=70; weight (lbs.)=172; bmi=24.68; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin098_CSH_ESP-1229_095.d ESP-1229 CaseStatus:Control | SEX:Female | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=67; weight (lbs.)=139; bmi=21.77; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin030_CSH_ESP-1255_096.d ESP-1255 CaseStatus:Case | SEX:Male | AGE_DICH:over50 BMI_DICH=Underweight.Normal; height (in.)=70; weight (lbs.)=168; bmi=24.1; MECFS=1; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin041_CSH_ESP-1268_097.d ESP-1268 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=66.6; weight (lbs.)=170; bmi=26.94; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin084_CSH_ESP-1281_098.d ESP-1281 CaseStatus:Control | SEX:Male | AGE_DICH:20_50 BMI_DICH=Overweight.Obese; height (in.)=68; weight (lbs.)=206; bmi=31.32; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin022_CSH_ESP-1294_099.d ESP-1294 CaseStatus:Control | SEX:Female | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=66; weight (lbs.)=120; bmi=19.37; MECFS=-; IBS=- SUBJECT_SAMPLE_FACTORS Lipkin010_CSH_ESP-1307_100.d ESP-1307 CaseStatus:Control | SEX:Male | AGE_DICH:20_50 BMI_DICH=Underweight.Normal; height (in.)=76; weight (lbs.)=185; bmi=22.52; MECFS=-; IBS=- #COLLECTION CO:COLLECTION_SUMMARY Subjects included 50 cases and 50 controls from the Chronic Fatigue Initiative CO:COLLECTION_SUMMARY (CFI) Cohort (28) recruited at 4 sites across the US who met the 1994 CDC Fukuda CO:COLLECTION_SUMMARY and/or Canadian consensus criteria for ME/CFS. CO:SAMPLE_TYPE Blood CO:BLOOD_SERUM_OR_PLASMA Plasma #TREATMENT TR:TREATMENT_SUMMARY Subjects included 50 cases and 50 controls from the Chronic Fatigue Initiative TR:TREATMENT_SUMMARY (CFI) Cohort (28) recruited at 4 sites across the US who met the 1994 CDC Fukuda TR:TREATMENT_SUMMARY and/or Canadian consensus criteria for ME/CFS. #SAMPLEPREP SP:SAMPLEPREP_SUMMARY 1.Thaw each 20 μL plasma aliquot at room temperature (see Aliquoting TEDDY SP:SAMPLEPREP_SUMMARY samples SOP). Once thawed (~10min) place liquid plasma samples on ice. 2. Add SP:SAMPLEPREP_SUMMARY 225 μL cold “MeOH with QC mix” (see SOP “QC mix for LC-MS lipid SP:SAMPLEPREP_SUMMARY analysis”). Keep MeOH on ice during extraction 3. Vortex each sample for 10s, SP:SAMPLEPREP_SUMMARY keeping the rest on ice during all the extraction. 4. Add 750 μL of cold MTBE SP:SAMPLEPREP_SUMMARY with 22:1 CE, keep MTBE on ice during extraction 5. Vortex for 10s 6. Shake for SP:SAMPLEPREP_SUMMARY 6min at 4°C in the orbital mixer. 7. Add 188 μL room temperature LC/MS grade SP:SAMPLEPREP_SUMMARY water. 8. Vortex for 20 s 9. Centrifuge for 2 min @ 14,000 rcf (12300 rpm) 10. SP:SAMPLEPREP_SUMMARY Remove supernatant, splitting into two aliquots of 350 μL, keeping one at SP:SAMPLEPREP_SUMMARY –20°C for backup 11. Dry samples to complete dryness in the speed vacuum SP:SAMPLEPREP_SUMMARY concentration system SP:SAMPLEPREP_PROTOCOL_FILENAME SOP_Extraction_of_plasma.pdf #CHROMATOGRAPHY CH:CHROMATOGRAPHY_TYPE Reversed phase CH:INSTRUMENT_NAME Agilent 6550 CH:COLUMN_NAME Waters Acquity CSH C18 (100 x 2.1mm, 1.7um) CH:COLUMN_NAME 1.7um Pre-Column CH:FLOW_GRADIENT 15% B to 99% B CH:FLOW_RATE 0.6 mL/min CH:COLUMN_TEMPERATURE 65 C CH:METHODS_FILENAME Data Dictionary Fiehn laboratory_CSH QTOF lipidomics_05-29-2014.pdf CH:SOLVENT_A 60:40 Acetonitrile:Water +10mM Ammonium Acetate +10mM Acetic Acid CH:SOLVENT_B 9:1 Isopropanol:Acetonitrile +10mM Ammonium Acetate +10mM Acetic Acid CH:COLUMN_PRESSURE 450-850 bar CH:INJECTION_TEMPERATURE 4 C CH:INTERNAL_STANDARD See data dictionary CH:RETENTION_TIME See data dictionary CH:SAMPLE_INJECTION 5.0 uL CH:ANALYTICAL_TIME 13 min CH:CAPILLARY_VOLTAGE 3500 eV CH:TIME_PROGRAM 15 min CH:WEAK_WASH_SOLVENT_NAME Isopropanol CH:STRONG_WASH_SOLVENT_NAME Isopropanol CH:TARGET_SAMPLE_TEMPERATURE Autosampler temp 4 C CH:RANDOMIZATION_ORDER Excel generated #ANALYSIS AN:ANALYSIS_TYPE MS AN:DETECTOR_TYPE TOF MCP AN:SOFTWARE_VERSION MassHunter AN:DATA_FORMAT .d #MS MS:MS_COMMENTS - MS:INSTRUMENT_NAME Agilent 6550 QTOF MS:INSTRUMENT_TYPE QTOF MS:MS_TYPE ESI MS:ION_MODE NEGATIVE MS:CAPILLARY_VOLTAGE 3500 eV MS:COLLISION_ENERGY 40 eV MS:COLLISION_GAS Nitrogen MS:DRY_GAS_FLOW 13L/min MS:DRY_GAS_TEMP 200 C MS:FRAGMENT_VOLTAGE 175 eV MS:FRAGMENTATION_METHOD Auto MS/MS MS:ION_SOURCE_TEMPERATURE 325 C MS:ION_SPRAY_VOLTAGE 1000 MS:IONIZATION Neg MS:PRECURSOR_TYPE Intact Molecule MS:REAGENT_GAS Nitrogen MS:SOURCE_TEMPERATURE 325 C MS:DATAFORMAT .d MS:DESOLVATION_GAS_FLOW 11 L/min MS:DESOLVATION_TEMPERATURE 350 C MS:NEBULIZER 35 psig MS:OCTPOLE_VOLTAGE 750 MS:RESOLUTION_SETTING Extended Dyamic Range MS:SCAN_RANGE_MOVERZ 60-1700 Da MS:SCANNING_CYCLE 2 Hz MS:SCANNING_RANGE 60-1700 Da MS:SKIMMER_VOLTAGE 65 MS:MS_RESULTS_FILE ST000800_AN001272_Results.txt UNITS:Counts #END