Summary of Study ST000627

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 PR000456. The data can be accessed directly via it's Project DOI: 10.21228/M83W49 This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

Show all samples  |  Perform analysis on untargeted data  
Download mwTab file (text)   |  Download mwTab file(JSON)   |  Download data files (Contains raw data)
Study IDST000627
Study TitleNon targeted metabolomic analysis of mouse and human bronchoalveolar lavage fluid, Lipid(+) experiment (part III)
Study TypeComprehensive profile
Study SummaryMouse BALF was collected from C57BL/6 mice (n = 10). Five mice were exposed to ambient air for one day (air control) and five mice were exposed to CS for nine months (smoking). Human BALF was collected from subjects from the COPDGene cohort (n = 5). COPD diagnosis was based on the ratio of forced expiratory volume in 1 second to forced vital capacity (FEV1/FVC). Subjects were 45-70 years old, BMI 27-45, weight 76-125kg, and were categorized as follows: 1 male former smoker without COPD (FEV1/FVC = 0.82), 2 male current smokers without COPD (FEV1/FVC = 0.91 and 0.79), 1 female current smoker with moderate COPD (FEV1/FVC = 0.51), and 1 male current smoker with moderate COPD (FEV1/FVC = 0.64)
Institute
University of Colorado Denver
Department Anschutz Medical Campus, Pharmaceutical Sciences
LaboratoryMetabolomics and Mass Spectrometry
Last NameReisdorph
First NameNichole
Address12850 East Montview Blvd, Denver, CO 80204
Emailnichole.reisdorph@ucdenver.edu
Phone-
Submit Date2017-04-21
Num Groups2
Total Subjects42
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-MS
Release Date2018-12-11
Release Version1
Nichole Reisdorph Nichole Reisdorph
https://dx.doi.org/10.21228/M83W49
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000456
Project DOI:doi: 10.21228/M83W49
Project Title:A strategy for producing a searchable bronchoalveolar lavage fluid compound database
Project Type:MS
Project Summary:Comprehensive metabolomic databases for Lipid(+/-) and Aqueous(+) fractions of BALF assembled from a mouse and human COPD experiment.
Institute:University of Colorado Denver
Department:Pharmaceutical Sciences, Anschutz Medical Campus
Laboratory:Metabolomics and Mass Spectrometry
Last Name:Reisdorph
First Name:Nichole
Address:12850 East Montview Blvd, Denver, CO 80204
Email:nichole.reisdorph@ucdenver.edu
Phone:-
Funding Source:P20-HL113445 Metabolic Profiles of COPD phenotypes

Subject:

Subject ID:SU000650
Subject Type:Human | Animal
Subject Species:Homo sapiens;Mus musculus
Taxonomy ID:9606;10090
Genotype Strain:Animal: C57BL/6
Species Group:Mammal

Factors:

Subject type: Human | Animal; Subject species: Homo sapiens;Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id Species SmokingStatus Phenotype
SA035183BALF_11833_15uL_CHuman Former smoker Moderate
SA035184BALF_11833_15uL_BHuman Former smoker Moderate
SA035185BALF_11833_15uL_AHuman Former smoker Moderate
SA035186BALF_17800_15uL_BHuman Smoker COPD
SA035187BALF_10031_15uL_AHuman Smoker COPD
SA035188BALF_17800_15uL_AHuman Smoker COPD
SA035189BALF_17800_15uL_CHuman Smoker COPD
SA035190BALF_10031_15uL_BHuman Smoker COPD
SA035191BALF_10031_15uL_CHuman Smoker COPD
SA035192BALF_12558_15uL_AHuman Smoker Healthy
SA035193BALF_12558_15uL_CHuman Smoker Healthy
SA035194BALF_12558_15uL_BHuman Smoker Healthy
SA035195BALF_14442_15uL_CHuman Smoker Healthy
SA035196BALF_14442_15uL_AHuman Smoker Healthy
SA035197BALF_14442_15uL_BHuman Smoker Healthy
SA035198BALF_MET141_2x_lipid_pos_BMouse Non-Smoker Healthy
SA035199BALF_MET141_2x_lipid_pos_CMouse Non-Smoker Healthy
SA035200BALF_MET133_1x_lipid_pos_BMouse Non-Smoker Healthy
SA035201BALF_MET142_4x_lipid_pos_AMouse Non-Smoker Healthy
SA035202BALF_MET133_1x_lipid_pos_CMouse Non-Smoker Healthy
SA035203BALF_MET141_2x_lipid_pos_AMouse Non-Smoker Healthy
SA035204BALF_MET144_2x_lipid_pos_AMouse Non-Smoker Healthy
SA035205BALF_MET144_2x_lipid_pos_CMouse Non-Smoker Healthy
SA035206BALF_MET133_1x_lipid_pos_AMouse Non-Smoker Healthy
SA035207BALF_MET144_2x_lipid_pos_BMouse Non-Smoker Healthy
SA035208BALF_MET143_1x_lipid_pos_BMouse Non-Smoker Healthy
SA035209BALF_MET142_4x_lipid_pos_CMouse Non-Smoker Healthy
SA035210BALF_MET142_4x_lipid_pos_BMouse Non-Smoker Healthy
SA035211BALF_MET108_2x_lipid_pos_BMouse Smoker Emphysema
SA035212BALF_MET107_1x_lipid_pos_AMouse Smoker Emphysema
SA035213BALF_MET107_1x_lipid_pos_BMouse Smoker Emphysema
SA035214BALF_MET106_4x_lipid_pos_CMouse Smoker Emphysema
SA035215BALF_MET106_4x_lipid_pos_BMouse Smoker Emphysema
SA035216BALF_MET106_4x_lipid_pos_AMouse Smoker Emphysema
SA035217BALF_MET108_2x_lipid_pos_AMouse Smoker Emphysema
SA035218BALF_MET108_2x_lipid_pos_CMouse Smoker Emphysema
SA035219BALF_MET128_1x_lipid_pos_AMouse Smoker Emphysema
SA035220BALF_MET128_1x_lipid_pos_BMouse Smoker Emphysema
SA035221BALF_MET126_4x_lipid_pos_CMouse Smoker Emphysema
SA035222BALF_MET126_4x_lipid_pos_BMouse Smoker Emphysema
SA035223BALF_MET126_4x_lipid_pos_AMouse Smoker Emphysema
SA035224BALF_MET128_1x_lipid_pos_CMouse Smoker Emphysema
Showing results 1 to 42 of 42

Collection:

Collection ID:CO000644
Collection Summary:Mouse BALF collection was performed using a total of 1.0 mL PBS divided into three washes and stored at -80°C until analysis. Human BALF was collected in the right middle lobe and lingual by instilling two aliquots of 40 mL and one aliquot of 50 mL of sterile saline per lobe (i.e., 130 mL per lobe, total volume = 260 mL per subject), which is withdrawn by gentle manual suction and immediately placed on ice. Aliquots for metabolomics analysis were frozen at -80 °C and stored until sample preparation and MS analysis.
Sample Type:BALF
Collection Method:Broncheoalveolar lavage

Treatment:

Treatment ID:TR000664
Treatment Summary:None

Sample Preparation:

Sampleprep ID:SP000657
Sampleprep Summary:100uL of BALF were prepared using methanol assisted protein precipitation followed by methyl-tert butyl ether (MTBE) liquid-liquid extraction. Both liquid and aqueous fractions were preserved for analysis. The lipid fraction was reconstituted in 200µL of methanol. The lipid fraction was dried down in a SpeedVac at 45°C for reconstitution in 50 µL of 95:5 water:acetonitrile.

Combined analysis:

Analysis ID AN000959
Analysis type MS
Chromatography type Reversed phase
Chromatography system Agilent 1290
Column Agilent Zorbax RRHD SB-C18 (100 x 2.1mm,1.8um)
MS Type ESI
MS instrument type QTOF
MS instrument name Agilent 6510 QTOF
Ion Mode POSITIVE
Units

Chromatography:

Chromatography ID:CH000684
Chromatography Summary:The BALF samples were separated using C18 reverse phase chromatography. The separations used an Agilent Zorbax Rapid Resolution HD (RRHD) SB-C18, 1.8 micron (2.1 x 100 mm) analytical column with an Agilent Zorbax SB-C18, 1.8 micron (2.1 x 5 mm) guard column and used an Agilent 1290 series high performance liquid chromatography (HPLC) pump. Injection volumes were 4µL for mouse BALF and 15µL for human BALF. Flow rate was 0.7 mL/min using the following mobile phases: mobile phase A was water with 0.1% formic acid, and mobile phase B was 60:36:4 isopropyl alcohol:acetonitrile:water with 0.1% formic acid. Gradients were 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, 10-14.6 minutes 30% B for the positive mode injections. For negative mode the following eluant profile was used: 0-1 minutes 30-70% B, 1-7.92 minutes 70-100% B, 7.92-10.4 minutes 100% B, 10.4-10.5 minutes 100-30% B, 10.5-15.1 minutes 30% B.
Instrument Name:Agilent 1290
Column Name:Agilent Zorbax RRHD SB-C18 (100 x 2.1mm,1.8um)
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, 10-14.6 minutes 30% B
Flow Rate:0.7 mL/min
Solvent A:100% water; 0.1% formic acid
Solvent B:60% isopropanol/36% acetonitrile/4% water; 0.1% formic acid
Chromatography Type:Reversed phase

MS:

MS ID:MS000854
Analysis ID:AN000959
Instrument Name:Agilent 6510 QTOF
Instrument Type:QTOF
MS Type:ESI
Ion Mode:POSITIVE
Capillary Voltage:4000V
Fragment Voltage:120
Desolvation Gas Flow:12mL/min
Desolvation Temperature:300C
Nebulizer:30psi
Scan Range Moverz:60-1600
Scanning:2.02 spectra/second
Skimmer Voltage:60V
  logo