Summary of Study ST000346
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 PR000278. The data can be accessed directly via it's Project DOI: 10.21228/M8030X This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST000346 |
| Study Title | Metabolites detected from human bronchoalveolar lavage |
| Study Summary | This is a preliminary trial to determine how viable this system will be to use on a much larger number of samples (up to 150). We would like to determine the range, number of metabolite species, and relative concentrations than can be detected in human bronchoalveolar lavage. We would also like to determine how clear the distinction is between the 3 patient groups as this will inform us as to how many of the 150 samples we need to run in the study proper. |
| Institute | University of California, Davis |
| Department | Genome and Biomedical Sciences Facility |
| Laboratory | WCMC Metabolomics Core |
| Last Name | Fiehn |
| First Name | Oliver |
| Address | 1315 Genome and Biomedical Sciences Facility, 451 Health Sciences Drive, Davis, CA 95616 |
| ofiehn@ucdavis.edu | |
| Phone | (530) 754-8258 |
| Submit Date | 2016-02-11 |
| Num Groups | 8 |
| Total Subjects | 32 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | d |
| Analysis Type Detail | LC-MS |
| Release Date | 2016-03-03 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000278 |
| Project DOI: | doi: 10.21228/M8030X |
| Project Title: | Metabolites detected from human bronchoalveolar lavage |
| Project Summary: | This is a preliminary trial to determine how viable this system will be to use on a much larger number of samples (up to 150). We would like to determine the range, number of metabolite species, and relative concentrations than can be detected in human bronchoalveolar lavage. We would also like to determine how clear the distinction is between the 3 patient groups as this will inform us as to how many of the 150 samples we need to run in the study proper. |
| Institute: | University of California, Davis |
| Last Name: | Fiehn |
| First Name: | Oliver |
| Address: | 1315 Genome and Biomedical Sciences Facility, 451 Health Sciences Drive, Davis, CA 95616 |
| Email: | ofiehn@ucdavis.edu |
| Phone: | (530) 754-8258 |
| Funding Source: | NIH U24DK097154 |
Subject:
| Subject ID: | SU000366 |
| Subject Type: | Animal |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Species Group: | Mammals |
Factors:
Subject type: Animal; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Condition |
|---|---|---|
| SA015294 | BAL_Mild_5148_009 | Mild Asthma |
| SA015295 | BAL_Mild_7693_006 | Mild Asthma |
| SA015296 | BAL_Mild_7223_007 | Mild Asthma |
| SA015297 | BAL_Mild_5965_010 | Mild Asthma |
| SA015298 | BAL_Mild_6816_008 | Mild Asthma |
| SA015299 | BAL_Normal_7230_013 | No Asthma |
| SA015300 | BAL_Normal_7376_011 | No Asthma |
| SA015301 | BAL_Normal_7042_014 | No Asthma |
| SA015302 | BAL_Normal_7295_012 | No Asthma |
| SA015303 | BAL_Normal_6880_015 | No Asthma |
| SA015304 | Kailko_Biorec01 | Quality Control |
| SA015305 | Kailko_Biorec01_1 | Quality Control |
| SA015306 | BAL_Severe_7747_007 | Severe Asthma |
| SA015307 | BAL_Severe_7277_002 | Severe Asthma |
| SA015308 | BAL_Severe_5842_005 | Severe Asthma |
| SA015309 | BAL_Severe_6247_004 | Severe Asthma |
| SA015310 | BAL_Severe_6339_003 | Severe Asthma |
| SA015311 | BAL_Severe_7747_001 | Severe Asthma |
| Showing results 1 to 18 of 18 |
Collection:
| Collection ID: | CO000360 |
| Collection Summary: | 50ml of hospital grade sterile saline was instilled into the lungs of human volunteers. As much liquid as possible is then gently suctioned out. The sample is then centrifuged to remove cellular material and debris, and supernatant collected and frozen at -80C |
| Collection Protocol Filename: | StudyDesign-GerardKaiko10202015.pdf |
| Sample Type: | Bronchoalveolar lavage supernatant |
Treatment:
| Treatment ID: | TR000380 |
| Treatment Summary: | The 3 groups are as follows: 1. Healthy controls (5) 2. Subjects with mild asthma (5) 3. Subjects with severe asthma (5) |
| Treatment Protocol Filename: | StudyDesign-GerardKaiko10202015.pdf |
Sample Preparation:
| Sampleprep ID: | SP000373 |
| Sampleprep Summary: | None |
Chromatography:
| Chromatography ID: | CH000398 |
| Chromatography Summary: | UPLC |
| Methods Filename: | Data_Dictionary_Fiehn_laboratory_CSH_QTOF_lipidomics_05-29-2014.pdf |
| Instrument Name: | Agilent 6530 |
| Column Name: | Waters Acquity CSH C18 (100 x 2.1mm,1.7um) |
| Column Pressure: | 450-850 bar |
| Column Temperature: | 65 C |
| Flow Gradient: | 15% B to 99% B |
| Flow Rate: | 0.6 mL/min |
| Sample Injection: | 1.67 uL |
| Solvent A: | 60% acetonitrile/40% water; 10mM formic acid; 10mM ammonium formate |
| Solvent B: | 90% isopropanol/10% acetonitrile; 10mM formic acid; 10mM ammonium formate |
| Analytical Time: | 13 min |
| Capillary Voltage: | 3500 |
| Time Program: | 15 min |
| Weak Wash Solvent Name: | Isopropanol |
| Weak Wash Volume: | 5 seconds |
| Strong Wash Solvent Name: | Same |
| Target Sample Temperature: | Autosampler temp 4 C |
| Randomization Order: | Excel |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH000399 |
| Chromatography Summary: | UPLC |
| Methods Filename: | Data_Dictionary_Fiehn_laboratory_CSH_QTOF_lipidomics_05-29-2014.pdf |
| Instrument Name: | Agilent 6550 |
| Column Name: | Waters Acquity CSH C18 (100 x 2.1mm,1.7um) |
| Column Pressure: | 450-850 bar |
| Column Temperature: | 65 C |
| Flow Gradient: | 15% B to 99% B |
| Flow Rate: | 0.6 mL/min |
| Sample Injection: | 5.0 uL |
| Solvent A: | 60% acetonitrile/40% water; 10mM formic acid; 10mM ammonium formate |
| Solvent B: | 90% isopropanol/10% acetonitrile; 10mM formic acid; 10mM ammonium formate |
| Analytical Time: | 13 min |
| Capillary Voltage: | 3500 |
| Time Program: | 15 min |
| Weak Wash Solvent Name: | Isopropanol |
| Weak Wash Volume: | 5 seconds |
| Strong Wash Solvent Name: | Same |
| Target Sample Temperature: | Autosampler temp 4 C |
| Randomization Order: | Excel |
| Chromatography Type: | Reversed phase |
Analysis:
| Analysis ID: | AN000561 |
| Analysis Type: | MS |
| Instrument Name: | Agilent/6530 Accurate Mass QTOF (Positive Mode) |
| Software Version: | MassHunter |
| Detector Type: | TOF MCP |
| Data Format: | .d |
| Chromatography ID: | CH000398 |
| Num Factors: | 4 |
| Num Metabolites: | 130 |
| Rt Units: | Minutes |
| Units: | Peak height |
| Analysis ID: | AN000562 |
| Analysis Type: | MS |
| Instrument Name: | Agilent/6550 Accurate Mass QTOF (Negative Mode) |
| Software Version: | MassHunter |
| Detector Type: | TOF MCP |
| Data Format: | .d |
| Chromatography ID: | CH000399 |
| Num Factors: | 4 |
| Num Metabolites: | 46 |
| Rt Units: | Minutes |
| Units: | Peak height |
