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MB Sample ID: SA198857
| Local Sample ID: | MU160575 |
| Subject ID: | SU002172 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Age Or Age Range: | 40-80 |
| Gender: | Male and female |
| Human Smoking Status: | Current/Former/Never |
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Subject:
| Subject ID: | SU002172 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Age Or Age Range: | 40-80 |
| Gender: | Male and female |
| Human Smoking Status: | Current/Former/Never |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| MU160575 | SA198857 | FL024227 | Female | GENDER |
| MU160575 | SA198857 | FL024227 | Black/Africian American | RACE.ETH |
| MU160575 | SA198857 | FL024227 | Former Smoker | smokStatus |
| MU160575 | SA198857 | FL024227 | U of Michigan | SITE_cat |
Collection:
| Collection ID: | CO002165 |
| Collection Summary: | The Subpopulations and Intermediate Outcome Measures in COPD Study (SPIROMICS) (ClinicalTrials.gov Identifier: NCT01969344) includes 2,771 subjects, aged 40-80 years with at least 20 pack-years of smoking. An additional 202 subjects were never smokers. Fasting blood drawn at the enrollment visit using a p100 tube. The first 648 subjects who returned for a 5-7 year visit (Visit 5) were selected for this study. The blood profiled were from the year 1 visit. Subject data includes: GENDER (Male/Female); RACE.ETH (Non-Hispanic, White/Black, African American/Other); smokStatus (Never Smoked/Former Smoker/Current Smoker); SITE_cat (Clinical center); POST_FEV1_DERV_V1 (Post-bronchodilator FEV1 (L)); adj_density_mesa (MESA-adjusted Lung Density); AGE_DERV_V1 (Age years); BMI_CM_V1 (Body Mass Index); SMOKING_PACK_YEARS_V1 (pack-years of smoking at baseline). |
| Sample Type: | Blood (plasma) |
Treatment:
| Treatment ID: | TR002184 |
| Treatment Summary: | The Subpopulations and Intermediate Outcome Measures in COPD Study (SPIROMICS) (ClinicalTrials.gov Identifier: NCT01969344) includes 2,771 subjects, aged 40-80 years with at least 20 pack-years of smoking. An additional 202 subjects were never smokers. Fasting blood drawn at the enrollment visit using a p100 tube. The first 648 subjects who returned for a 5-7 year visit (Visit 5) were selected for this study. The blood profiled were from the year 1 visit. |
| Human Fasting: | Fasting |
Sample Preparation:
| Sampleprep ID: | SP002178 |
| Sampleprep Summary: | Following receipt, samples were inventoried and immediately stored at -80oC. Each sample received was accessioned into the Metabolon LIMS system and was assigned by the LIMS a unique identifier that was associated with the original source identifier only. This identifier was used to track all sample handling, tasks, results, etc. The samples (and all derived aliquots) were tracked by the LIMS system. All portions of any sample were automatically assigned their own unique identifiers by the LIMS when a new task was created; the relationship of these samples was also tracked. All samples were maintained at -80oC until processed. Samples were prepared using the automated MicroLab STAR® system from Hamilton Company. Several recovery standards were added prior to the first step in the extraction process for QC purposes. To remove protein, dissociate small molecules bound to protein or trapped in the precipitated protein matrix, and to recover chemically diverse metabolites, proteins were precipitated with methanol under vigorous shaking for 2 min (Glen Mills GenoGrinder 2000) followed by centrifugation. The resulting extract was divided into five fractions: two for analysis by two separate reverse phase (RP)/UPLC-MS/MS methods with positive ion mode electrospray ionization (ESI), one for analysis by RP/UPLC-MS/MS with negative ion mode ESI, one for analysis by HILIC/UPLC-MS/MS with negative ion mode ESI, and one sample was reserved for backup. Samples were placed briefly on a TurboVap® (Zymark) to remove the organic solvent. The sample extracts were stored overnight under nitrogen before preparation for analysis. |
Combined analysis:
| Analysis ID | AN003406 | AN003407 | AN003408 | AN003409 |
|---|---|---|---|---|
| Analysis type | MS | MS | MS | MS |
| Chromatography type | Reversed phase | Reversed phase | Reversed phase | HILIC |
| Chromatography system | Waters Acquity | Waters Acquity | Waters Acquity | Waters Acquity |
| Column | Waters Acquity BEH C18 (100 x 2mm,1.7um) | Waters Acquity BEH C18 (100 x 2mm,1.7um) | Waters Acquity BEH C18 (100 x 2mm,1.7um) | Waters Acquity BEH Amide (150 x 2.1mm,1.7um) |
| MS Type | ESI | ESI | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap | Orbitrap | Orbitrap |
| MS instrument name | Thermo LTQ | Thermo LTQ | Thermo LTQ | Thermo LTQ |
| Ion Mode | POSITIVE | POSITIVE | NEGATIVE | NEGATIVE |
| Units | relativeMedian | relativeMedian | relativeMedian | relativeMedian |
Chromatography:
| Chromatography ID: | CH002517 |
| Chromatography Summary: | Low pH polar |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters Acquity BEH C18 (100 x 2mm,1.7um) |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH002518 |
| Chromatography Summary: | Low pH Lipophilic |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters Acquity BEH C18 (100 x 2mm,1.7um) |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH002519 |
| Chromatography Summary: | High pH |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters Acquity BEH C18 (100 x 2mm,1.7um) |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH002520 |
| Chromatography Summary: | HILIC |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters Acquity BEH Amide (150 x 2.1mm,1.7um) |
| Chromatography Type: | HILIC |
MS:
| MS ID: | MS003171 |
| Analysis ID: | AN003406 |
| Instrument Name: | Thermo LTQ |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Proprietary analytical software for integration and peak picking |
| Ion Mode: | POSITIVE |
| MS ID: | MS003172 |
| Analysis ID: | AN003407 |
| Instrument Name: | Thermo LTQ |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Proprietary analytical software for integration and peak picking |
| Ion Mode: | POSITIVE |
| MS ID: | MS003173 |
| Analysis ID: | AN003408 |
| Instrument Name: | Thermo LTQ |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Proprietary analytical software for integration and peak picking |
| Ion Mode: | NEGATIVE |
| MS ID: | MS003174 |
| Analysis ID: | AN003409 |
| Instrument Name: | Thermo LTQ |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Proprietary analytical software for integration and peak picking |
| Ion Mode: | NEGATIVE |
