Summary of Study ST001094

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR000732. The data can be accessed directly via it's Project DOI: 10.21228/M82D79 This work is supported by NIH grant, U2C- DK119886.


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.

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Study IDST001094
Study TitleEarly Mechanistic Events Induced by Secondhand Smoke Prevalent Low Molecular Weight Polycyclic Aromatic Hydrocarbons in Mouse Lung Epithelial Cells (part-I)
Study SummaryWe evaluated lung epithelial cells exposed to low molecular weight polycyclic aromatic hydrocarbons and what lipid metabolites were produced following early exposure, prior to metabolism. We used 40 uM 1-methylanthracene and fluoranthene (1:1 ratio)for 30 min, 1h, and 4 h time points for the global untargeted metabolomics study (AKB study 1).
University of Colorado Denver
DepartmentAnschutz Medical Campus
Last NameBauer
First NameAlison
Address12850 E. Montview Dr. Rm 3125, Aurora, CO 80045
Submit Date2018-11-06
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-MS
Release Date2020-03-03
Release Version1
Alison Bauer Alison Bauer application/zip

Select appropriate tab below to view additional metadata details:


Project ID:PR000732
Project DOI:doi: 10.21228/M82D79
Project Title:Adverse effects of PAHs on lung cells
Project Summary:Low-molecular-weight (LMW) polycyclic aromatic hydrocarbons (PAHs) are more prevalent in the environment, occupational settings, as well as in secondhand smoke (SHS), when compared to their high molecular weight counterparts, such as benzo[a]pyrene (B[a]P). Previously, we demonstrated that SHS-prevalent LMW PAHs activate p38-MAPK-dependent dysregulation of gap junction intercellular communication (GJIC) and increased cytokines involved in inflammatory lung diseases. However, there is little known about the early mechanistic events leading to inflammation, specifically those mediated through lipid signaling and eicosanoids. Secondhand smoke is a complex mixture and to model this feature in vitro we examined the effects of a binary mixture of 1-methylanthracene (1-MeA) and fluoranthene (Flthn) in C10 cells, a mouse, non-tumorigenic alveolar type II cell line via a global metabolomics approach to evaluate the lipids.
Institute:University of Colorado Denver
Department:Pharmaceutical Sciences, Anschutz Medical Campus
Last Name:Bauer
First Name:Alison
Address:12850 E. Montview Dr. Rm 3125, Aurora, CO 80045
Funding Source:R15 ES 024893-01 (AKB) and the Flight Attendant Medical Research Institute (FAMRI) CIA 130022 (AKB).
Project Comments:There are two studies that will be uploaded. AKB study 1 and AKB study 2.
Contributors:Katelyn J. Siegrist, DeeDee Romo, Brad L. Upham, Michael Armstrong, Kevin Quinn, Lauren Vanderlinden, Kalpana Velmurugan, Mark Elie, Dominik Reinhold, Nichole Reisdorph, Laura Saba


Subject ID:SU001138
Subject Type:Cultured cells
Subject Species:Mus musculus
Taxonomy ID:10090


Subject type: Cultured cells; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id Treatment Time
SA074532sample.152PAHs 1 hr
SA074533sample.162PAHs 1 hr
SA074534sample.142PAHs 1 hr
SA074535sample.132PAHs 1 hr
SA074536sample.62PAHs 30 min
SA074537sample.52PAHs 30 min
SA074538sample.82PAHs 30 min
SA074539sample.72PAHs 30 min
SA074540sample.212PAHs 4 hr
SA074541sample.222PAHs 4 hr
SA074542sample.232PAHs 4 hr
SA074543sample.242PAHs 4 hr
SA074544sample.12DMSO 1 hr
SA074545sample.9DMSO 1 hr
SA074546sample.10DMSO 1 hr
SA074547sample.11DMSO 1 hr
SA074548sample.2DMSO 30 min
SA074549sample.4DMSO 30 min
SA074550sample.3DMSO 30 min
SA074551sample.1DMSO 30 min
SA074552sample.17DMSO 4 hr
SA074553sample.18DMSO 4 hr
SA074554sample.19DMSO 4 hr
SA074555sample.20DMSO 4 hr
Showing results 1 to 24 of 24


Collection ID:CO001132
Collection Summary:For the global metabolomics with a lipid focus, immediately following treatment, cell monolayers were washed 3 times with cold PBS, and cells were scraped and fixed in 500 μL 70% MeOH. Samples were stored immediately at -80°C until pretreatment for solid phase extraction (SPE).
Collection Protocol Filename:AKB_Untargeted-protocol.docx
Collection Protocol Comments:For AKB study 1 protocol, the collection, treatment, and sample prep are all in the same file.
Sample Type:Epithelial cells


Treatment ID:TR001152
Treatment Summary:For the global metabolomics with a focus on the lipids: Cells (passage <20) were maintained in CMRL 1066 media containing 10% FBS and 1% glutamate in a humidified atmosphere at 37˚ C, 5% CO2, and 95% air (Osgood et al. 2013). Once cells were grown to confluence, cells were serum deprived for 24 hr prior to treatment with the binary 1:1 LMW PAH mixture of 1-MeA and Flthn at a final dose of 40 μM. This mixture has been used previously in our lab (PMC5808746) to represent two LMW PAH’s common in secondhand smoke and environmental exposures.
Treatment Protocol Filename:AKB_Untargeted-protocol.docx
Treatment Protocol Comments:For AKB study 1 protocol, the collection, treatment, and sample prep are all in the same file.

Sample Preparation:

Sampleprep ID:SP001145
Sampleprep Summary:The hydrophobic fraction was extracted from the samples using an organic liquid-liquid extraction technique with methyl tert-butyl ether (MTBE) and water (Cruickshank-Quinn et al. 2014; Yang et al. 2013). The upper hydrophobic layer was transferred to a new tube. The hydrophobic layer was then dried under nitrogen, reconstituted in 200 µL of methanol, and stored at -80 °C until LCMS analysis.
Sampleprep Protocol Filename:AKB_Targeted-protocol.docx
Sampleprep Protocol Comments:For AKB study 1 protocol, the collection, treatment, and sample prep are all in the same file.

Combined analysis:

Analysis ID AN001780
Analysis type MS
Chromatography type Reversed phase
Chromatography system Agilent 1290
Column Agilent Zorbax Rapid Resolution HD SB-C18
MS instrument type TOF
MS instrument name Agilent 6210 TOF
Units abundance/counts


Chromatography ID:CH001258
Instrument Name:Agilent 1290
Column Name:Agilent Zorbax Rapid Resolution HD SB-C18
Chromatography Type:Reversed phase


MS ID:MS001644
Analysis ID:AN001780
Instrument Name:Agilent 6210 TOF
Instrument Type:TOF