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MB Sample ID: SA033142

Local Sample ID:22542G
Subject ID:SU000624
Subject Type:Human Plasma
Subject Species:Homo sapiens
Taxonomy ID:9606
Age Or Age Range:57-70
Gender:Males and Females
Human Race:Non-Hispanic White
Human Smoking Status:Current and Former Smokers
Species Group:Human

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Subject:

Subject ID:SU000624
Subject Type:Human Plasma
Subject Species:Homo sapiens
Taxonomy ID:9606
Age Or Age Range:57-70
Gender:Males and Females
Human Race:Non-Hispanic White
Human Smoking Status:Current and Former Smokers
Species Group:Human

Factors:

Local Sample IDMB Sample IDFactor Level IDLevel ValueFactor Name
22542GSA033142FL007358-Smoking Status
22542GSA033142FL007358-Gold Stage

Collection:

Collection ID:CO000618
Collection Summary:All subjects were from the COPDGene cohort1, an NIH-sponsored multi-centered study of the genetic epidemiology of COPD. Subjects had fresh frozen plasma collected using a p100 tube (BD) at one of the COPDGene sites (National Jewish Health). Additional information on the COPDGene study and the collection of clinical data has been previously described1.” 1 Regan EA, Hokanson JE, Murphy JR, Make B, Lynch DA, Beaty TH et al. Genetic epidemiology of COPD (COPDGene) study design. COPD. 2010;7(1):32-43. doi:10.3109/15412550903499522.
Sample Type:Plasma
Blood Serum Or Plasma:Plasma

Treatment:

Treatment ID:TR000638
Treatment Summary:n/a

Sample Preparation:

Sampleprep ID:SP000631
Sampleprep Summary:100µL of plasma was prepared using methanol to extract precipitate the proteins into a pellet. A liquid-liquid extraction with water and methyl-tert butyl ether (MTBE) was used to partition the supernatant into an aqueous layer and an organic layer (lipids). The aqueous layer was dried down in a SpeedVac at 45°C, then reconstituted in 100µL of 95:5 water:acetonitrile. The lipid fraction was dried down in a SpeedVac at 45°C, then reconstituted in 200µL of 100% methanol.

Combined analysis:

Analysis ID AN000920 AN000921
Analysis type MS MS
Chromatography type Reversed phase HILIC
Chromatography system Agilent 6210 Agilent 6520
Column Agilent Zorbax RRHD SB-C18 (100 x 2.1mm,1.8um) Phenomenex Kinetex HILIC 100A (50 x 2.1 mm,2.6um)
MS Type ESI ESI
MS instrument type TOF QTOF
MS instrument name Agilent Agilent
Ion Mode POSITIVE POSITIVE
Units Count Counts

Chromatography:

Chromatography ID:CH000656
Chromatography Summary:Lipid Fraction (C18)
Instrument Name:Agilent 6210
Column Name:Agilent Zorbax RRHD SB-C18 (100 x 2.1mm,1.8um)
Column Temperature:60°C
Flow Gradient:0-0.5 minutes 30-70% B, 0.5-7.42 minutes 70-100% B, 7.42-9.9 minutes 100% B, 9.9-10.0 minutes 100-30% B, followed by column re-equilibration
Flow Rate:0.7 mL/min
Injection Temperature:4°C
Sample Injection:4µL
Solvent A:100% water; 0.1% formic acid
Solvent B:60% isopropanol/36% acetonitrile/4% water; 0.1% formic acid
Capillary Voltage:4000V
Randomization Order:Excel rand() function
Chromatography Type:Reversed phase
  
Chromatography ID:CH000657
Chromatography Summary:Aqueous Fraction (HILIC)
Instrument Name:Agilent 6520
Column Name:Phenomenex Kinetex HILIC 100A (50 x 2.1 mm,2.6um)
Column Temperature:20°C
Flow Gradient:0.2 minutes 100% B, 2-2.1 minutes 100-90% B, 2.1-8.6 minutes 90-50% B, 8.6-8.7 minutes 50-0% B, 8.7-14.7 minutes 0% B, 14.7-14.8 minutes 0-100% B, followed by column re-equilibration
Flow Rate:0.6 mL/min
Injection Temperature:4°C
Sample Injection:1µL
Solvent A:50% acetonitrile/50% water; ammonium acetate, pH 5.8
Solvent B:90% acetonitrile/10% water; pH 5.8 ammonium acetate
Capillary Voltage:4000V
Randomization Order:Excel rand() function
Chromatography Type:HILIC

MS:

MS ID:MS000819
Analysis ID:AN000920
Instrument Name:Agilent
Instrument Type:TOF
MS Type:ESI
Ion Mode:POSITIVE
Fragment Voltage:120V
Scanning Range:60-1600m/z
Skimmer Voltage:60V
  
MS ID:MS000820
Analysis ID:AN000921
Instrument Name:Agilent
Instrument Type:QTOF
MS Type:ESI
Ion Mode:POSITIVE
Fragment Voltage:120V
Scanning Range:50-1700m/z
Skimmer Voltage:60V
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