Summary of Study ST001527
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 PR001028. The data can be accessed directly via it's Project DOI: 10.21228/M8T99V This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST001527 |
| Study Title | Lung cancer metabolomics analysis |
| Study Summary | This study explored models predictive of staging and chemotherapy response based on metabolomic analysis of fresh, patient-derived non-small cell lung cancer (NSCLC) core biopsies. Prospectively collected tissue samples before initial treatment were evaluated with high-resolution 2DLC-MS/MS and 13C-glucose enrichment, and the data were comprehensively analyzed with machine learning techniques. Patients were categorized as Disease-Control (DC) [encompassing complete-response (CR), partial-response (PR), and stable-disease (SD)] and Progressive-Disease (PD). Four major types of learning methods (partial least squares discriminant analysis (PLS-DA), support vector machines (SVM), artificial neural networks, and random forests) were applied to differentiate between positive (DC and CR/PR) and poor (PD and SD/PD) responses, and between stage I/II/III and stage IV disease. Models were trained with forward feature selection based on variable importance and tested on validation subsets. |
| Institute | University of Louisville |
| Department | Bioengineering |
| Last Name | Frieboes |
| First Name | Hermann |
| Address | Lutz Hall 419 |
| hbfrie01@louisville.edu | |
| Phone | 502-852-3302 |
| Submit Date | 2020-09-16 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2022-08-01 |
| Release Version | 1 |
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Sample Preparation:
| Sampleprep ID: | SP001609 |
| Sampleprep Summary: | After incubation, media and tissue sample were transferred to 1.5mL microcentrifuge tube and centrifuged for 5min. 13C-glucose media was aspirated and specimen was washed with PBS and centrifuged for 5min, twice. After wash, 500mL acetonitrile was added and tissue was homogenized with pellet mixer. After 2-3min homogenization, 376mL of DNase/RNase free water and 250mL chloroform were added. Contents were vortexed until milky-white color and centrifuged for 20min. Top (polar) layer was aspirated and frozen at -80oC. As control, a NSCLC tissue biopsy was incubated in unlabeled glucose media for 24h and processed likewise. Sample polar layers were flash frozen in liquid N2, then lyophilized for 24-48h until dried |
