Summary of Study ST001171
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 PR000783. The data can be accessed directly via it's Project DOI: 10.21228/M8G970 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.
| Study ID | ST001171 |
| Study Title | Metabolomics of World Trade Center Exposed New York City Firefighters |
| Study Type | C18 Reversed-Phase Broad Spectrum Metabolomics |
| Study Summary | Particulate matter (PM) exposure and metabolic syndrome (MetSyn) coexist in both industrialized and developing nations. PM and MetSyn are strong risk factors for chronic obstructive pulmonary disease (COPD) and asthma. After the World Trade Center collapse in 9/11/2001, PM-exposed individuals from the Fire Department of New York City (FDNY) developed a progressively lung disease. This nested case-cohort study is composed of never smoking, WTC exposed firefighters with normal pre-9/11 lung function presenting for subspecialty pulmonary evaluation (SPE) before March 2008. Representative cohort controls with serum drawn within six months of 9/11 (n=100). FEV1 at subspecialty exam defined cases: susceptible World Trade Center Lung Injury (WTC-LI) cases (n=50) had FEV1< lower limit of normal (LLN) and resistant WTC-LI cases with FEV1 ≥107% predicted (n=50). This study will determine the metabolomics profile that differentiates firefighters with WTC-LI, firefighters resistant to WTC-LI, and similarly exposed cohort controls. |
| Institute | New York University |
| Department | School of Medicine |
| Laboratory | Laboratory at NYU/Bellevue |
| Last Name | Nolan |
| First Name | Anna |
| Address | Academic office 462 1st Avenue, New Bellevue 16, S 16(Office)/ N 20 (Lab) New York, NY 10016 |
| anna.nolan@nyulangone.org | |
| Phone | 212-263-7283 |
| Submit Date | 2019-02-22 |
| Num Groups | 3 |
| Total Subjects | 224, 200 study samples, 24 pools |
| Num Males | 200 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2021-02-26 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Sample Preparation:
| Sampleprep ID: | SP001244 |
| Sampleprep Summary: | The Fire Department of New York City (FDNY) serum sampling occurred at the Bureau of Health Services (BHS) and the FDNY Headquarters (9 Metrotech Center, Brooklyn, NY). Serum processing and analysis occurred in the PI’s Laboratory at New York University /Bellevue. The specimens were stored in the New York University-The Fire Department of New York City- World Trade Center Lung Injury Biorepository (NYU-FDNY WTC) in Dr. Nolan’s laboratory. Each stored specimen was labeled with a unique code. This unique code on the sample was linked to a specific subject. Samples were stored in -80 oC and shipped to the Eastern Regional Comprehensive Metabolomics Resource Core (ERCMRC) on dry ice. Table 1 lists the sample ID and associated metadata provided. Serum samples were thawed at 4 °C overnight. All samples were vortexed via multiple tube vortex mixer for 2 min at 3000 rpm. Serum samples were centrifuged at 1000 rpm for 30 sec. A volume of 8 µL aliquot of each studied samples was transferred into a 10.0 mL tube to make the Study Pool (SP). A volume of 1500 µL of CHEAR Reference Plasma was used for the CHEAR Pool (CP). An aliquot of 50 µL serum (including experimental samples, SP, and CP) was transferred to a new, pre-labeled Lo-Bind Eppendorf tube. There were total 200 experimental samples, 24 SP samples, and 24 CP samples in this study. The samples were extracted by 400 µL methanol with 500 ng/ml tryptophan-d5 as internal standard via a multiple tube vortex mixer for 2 min at 5000 rpm. Protein precipitate was pelleted using a centrifuge operating at room temperature for 4 min at 16,000 rcf. A volume of 350 µl of the supernatant was transferred into a pre-labeled 2.0 ml Low-bind Eppendorf tube, and then dried by a SpeedVac overnight. For immediate analysis, 100 µL of water-methanol solution (95:5, v/v) was added to reconstitute the dried extracts, and the samples were thoroughly mixed on multiple tube vortex mixer for 10 min at 5000 rpm. Samples were centrifuged at 4°C for 4 min at 16,000 rcf. The supernatant was transferred to pre-labeled autosampler vials for data acquisition by LC-MS. Broad-spectrum metabolomics was conducted using a Thermo Scientific™ Vanquish™ UPHPLC - Q Exactive™ HF-X Orbitrap System. Metabolites were separated on an Acquity UPLC HSS T3 C18 (2.1 X 100 mm, 1.8 µm) operating at 50 C using a reversed phase gradient separation with Water with 0.1% Formic Acid (v/v) as mobile phase A and Methanol with 0.1% Formic Acid (v/v) as mobile phase B. A 5 µL was injected into the instrument, and MS was collected between 50-750 m/z in positive mode with the MS/MS data triggered by the Data-Dependent Acquisition. |
| Extraction Method: | Vortex with methanol containing 500ng/ml tryptophan-d5 as internal standard |
| Extract Storage: | -80℃ |
| Sample Resuspension: | Water-Methanol (95:5, v/v) |
| Sample Spiking: | Tryptophan-d5 |
