Summary of Study ST002001

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR001269. The data can be accessed directly via it's Project DOI: 10.21228/M8PD9N This work is supported by NIH grant, U2C- DK119886.

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Study IDST002001
Study TitleA case-control study on plasma metabolomics analysis in Myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) (Part 2)
Study SummaryTargeted and untargeted metabolomics analysis consisting of 888 metabolic analytes covering primary metabolites, biogenic amines, complex lipids, and oxylipins in 106 ME/CFS cases and 91 frequency-matched healthy controls
Institute
Columbia University
DepartmentCenter for Infection and Immunity
LaboratoryCenter for Infection and Immunity
Last NameLipkin
First NameW. Ian
Address722 W. 168th St., 17th Floor, New York, NY, 10032
Emailwil2001@cumc.columbia.edu
Phone212-342-9033
Submit Date2021-11-22
Raw Data AvailableYes
Analysis Type DetailLC-MS
Release Date2021-12-08
Release Version1
W. Ian Lipkin W. Ian Lipkin
https://dx.doi.org/10.21228/M8PD9N
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR001269
Project DOI:doi: 10.21228/M8PD9N
Project Title:Case-control study on plasma metabolomics analysis in Myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS)
Project Summary:Targeted and untargeted metabolomics analysis consisting of 888 metabolic analytes covering primary metabolites, biogenic amines, complex lipids, and oxylipins in 106 ME/CFS cases and 91 frequency-matched healthy controls.
Institute:Columbia University
Department:Center for Infection and Immunity
Last Name:Lipkin
First Name:W. Ian
Address:722 W. 168th St., 17th Floor, New York, NY, 10032
Email:wil2001@cumc.columbia.edu
Phone:212-342-9033
Funding Source:This study was funded by National Institutes of Health U54 AI138370 (Center for Solutions for ME/CFS)

Subject:

Subject ID:SU002082
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Gender:Not applicable

Factors:

Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id treatment
SA187025GH025_157case
SA187026GH024_156case
SA187027CD067_084case
SA187028CD064_082case
SA187029CD065_083case
SA187030CD073_089case
SA187031CD074_090case
SA187032GH019_153case
SA187033GH017_152case
SA187034GH021_154case
SA187035GH022_155case
SA187036CD075_091case
SA187037CD076_092case
SA187038CD063_081case
SA187039CD059_079case
SA187040CD039_064case
SA187041GH053_170case
SA187042GH054_171case
SA187043CD035_061case
SA187044GH058_173case
SA187045CD041_066case
SA187046GH049_168case
SA187047CD055_077case
SA187048GH037_161case
SA187049CD053_076case
SA187050GH040_164case
SA187051GH042_166case
SA187052CD083_097case
SA187053AB003_001case
SA187054EF031_123case
SA187055EF032_124case
SA187056EF029_122case
SA187057EF028_121case
SA187058EF024_118case
SA187059EF026_119case
SA187060EF033_125case
SA187061EF034_126case
SA187062EF043_131case
SA187063GH002-2_142case
SA187064EF041_130case
SA187065GH004_143case
SA187066EF035_127case
SA187067EF023_117case
SA187068EF020_116case
SA187069EF004_105case
SA187070EF005_106case
SA187071EF003_104case
SA187072EF001_102case
SA187073GH060_174case
SA187074GH008_146case
SA187075EF010_110case
SA187076EF017_114case
SA187077EF019_115case
SA187078EF013_113case
SA187079EF012_112case
SA187080EF011_111case
SA187081CD084_098case
SA187082CD043_068case
SA187083IJ043_189case
SA187084AB047_026case
SA187085IJ044_190case
SA187086IJ046_191case
SA187087AB037_020case
SA187088IJ047_192case
SA187089AB049_027case
SA187090AB050_028case
SA187091IJ013_184case
SA187092IJ009_182case
SA187093IJ014_185case
SA187094AB055_031case
SA187095IJ030_187case
SA187096CD030_058case
SA187097AB036_019case
SA187098AB034_018case
SA187099AB010_006case
SA187100AB012_007case
SA187101AB009-2_005case
SA187102AB008_004case
SA187103AB004_002case
SA187104AB006_003case
SA187105AB014_008case
SA187106AB017_009case
SA187107IJ052_194case
SA187108IJ049_193case
SA187109IJ059_195case
SA187110AB023_011case
SA187111AB022_010case
SA187112IJ006_181case
SA187113AB052_030case
SA187114CD016_048case
SA187115CD015_047case
SA187116CD014_046case
SA187117IJ001_178case
SA187118CD001-2_038case
SA187119CD019-2_050case
SA187120CD027_056case
SA187121CD024_053case
SA187122CD022_052case
SA187123CD020_051case
SA187124CD011_044case
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Collection:

Collection ID:CO002075
Collection Summary:Plasma was collected and frozen at -80.
Sample Type:Blood (serum)

Treatment:

Treatment ID:TR002094
Treatment Summary:Blinded study of control versus cases.

Sample Preparation:

Sampleprep ID:SP002088
Sampleprep Summary:1 Thaw plasma samples on ice 2 Vortex plasma sample and pipette 50µl in polypropylene Eppendorf tube/Plate 3 Add Surrogate Standards of the 3 lipid classes (as needed) and other reagents as in the following table: Plasma Sample 10x Oxylipid Surrogate STDs CUDA + PHAU Anti-oxidant ACN/MeOH SUM 4 Vortex for 30sec 5 Centrifuge at 6°C for 5 min at 15,000 g (or 1,800 g for plates) 6 Take the supernatant (~240µl) into new Eppendorf tube/filter plate 7 Spin Filter (0.1 um) or plate filter (0.2um) for 5 min @ 12,000 g (1,800g for plate) 8 place aliquotes of samples into vials, or plate, and cap vials or seal plates 9 Store in -20°C until analysis

Combined analysis:

Analysis ID AN003264
Analysis type MS
Chromatography type HILIC
Chromatography system Thermo Vanquish
Column Waters Acquity BEH Amide (150 x 2.1mm,1.7um)
MS Type ESI
MS instrument type Triple quadrupole
MS instrument name ABI Sciex 4000 QTrap
Ion Mode UNSPECIFIED
Units nM

Chromatography:

Chromatography ID:CH002408
Chromatography Summary:Targeted oxylipin analysis
Instrument Name:Thermo Vanquish
Column Name:Waters Acquity BEH Amide (150 x 2.1mm,1.7um)
Chromatography Type:HILIC

MS:

MS ID:MS003036
Analysis ID:AN003264
Instrument Name:ABI Sciex 4000 QTrap
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:analyzed by a Waters UPLC with a 2.1×150 mm, 1.7 µm Acquity BEH column, ESI (+) and (-) switching and detection by multi-reaction monitoring on an Sciex 6500+ QTRAP mass spectrometer. We validated this method for linearity, limit of detection, limit of quantitation, inter- and intra-day reproducibility, and recovery for all targets, yielding better than 15% relative standard deviation and (spiked) recoveries of greater than 80%.
Ion Mode:UNSPECIFIED
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