Summary of Study ST000367
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 PR000292. The data can be accessed directly via it's Project DOI: 10.21228/M89C74 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST000367 |
| Study Title | Distinctly perturbed metabolic networks underlie differential tumor tissue damages induced by immune modulator b-glucan in a two-case ex vivo non-small cell lung cancer study |
| Study Type | tracer |
| Study Summary | [U-13C]-Glu SIRM study of ex vivo tissue slices in matched-pair tumor/non-tumor ex vivo tissue slices from two human patients with and without beta-glucan. |
| Institute | University of Kentucky |
| Department | CESB |
| Last Name | Fan |
| First Name | Teresa |
| Address | Rm 516 Biopharm Complex, 789 S. Limestone St.,Univ. of Kentucky, Lexington, KY 40536 |
| twmfan@gmail.com | |
| Phone | - |
| Submit Date | 2016-03-10 |
| Analysis Type Detail | LC-MS |
| Release Date | 2016-03-21 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000292 |
| Project DOI: | doi: 10.21228/M89C74 |
| Project Title: | Systems Biochemistry in Lung Cancer: toward a mechanistic understanding of NSCLC |
| Project Summary: | The program comprises three project areas utilizing stable isotope resolved metabolomics to gain a mechanistic understanding of NSCLC in situ. The projects combine cell culture, animal models and human subjects to define the influence of the tumor microenvironment on cancer progression. |
| Institute: | University of Kentucky |
| Last Name: | Lane |
| First Name: | Andrew |
| Address: | Rm 516 Biopharm Complex, 789 S. Limestone St.,Univ. of Kentucky, Lexington, KY 40536 |
| Email: | andrewnlane@gmail.com |
| Phone: | - |
Subject:
| Subject ID: | SU000388 |
| Subject Type: | Animal |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Subject Comments: | tissue_slice |
| Species Group: | Human |
Factors:
Subject type: Animal; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment | Tissue type |
|---|---|---|---|
| SA016507 | 34_UK49 | 13C6Glc_100ug/ml b-glucan | nontumor |
| SA016508 | 33_UK49 | 13C6Glc_100ug/ml b-glucan | nontumor |
| SA016509 | 15_UK21 | 13C6Glc_100ug/ml b-glucan | nontumor |
| SA016510 | 07_UK21 | 13C6Glc_100ug/ml b-glucan | tumor |
| SA016511 | 03_UK49 | 13C6Glc_100ug/ml b-glucan | tumor |
| SA016512 | 04_UK49 | 13C6Glc_100ug/ml b-glucan | tumor |
| SA016513 | 31_UK49 | 13C6Glc | nontumor |
| SA016514 | 32_UK49 | 13C6Glc | nontumor |
| SA016515 | 13_UK21 | 13C6Glc | nontumor |
| SA016516 | 05_UK21 | 13C6Glc | tumor |
| SA016517 | 01_UK49 | 13C6Glc | tumor |
| SA016518 | 02_UK49 | 13C6Glc | tumor |
| Showing results 1 to 12 of 12 |
Collection:
| Collection ID: | CO000382 |
| Collection Summary: | 2 methods were used: Precellys homogenization (Precellys_homogenization_SOP-2015-04-09.pdf, measurements: IC-FTMS1) and Retsch homogenization (protocol: Retsch_homogenization_SOP-2015-09-27.pdf, measurements: IC-FTMS2) |
| Collection Protocol Filename: | Precellys_homogenization_SOP-2015-04-09.pdf Retsch_homogenization_SOP-2015-09-27.pdf |
| Collection Protocol Comments: | Precellys_homogenization_SOP-2015-04-09.pdf (IC-FTMS1), Retsch_homogenization_SOP-2015-09-27.pdf (IC-FTMS2) |
| Sample Type: | Lung |
Treatment:
| Treatment ID: | TR000402 |
| Treatment Summary: | none |
| Treatment Protocol Filename: | SIRM_ex_vivo_tissue_slices_protocol__Bio-protocol_6_e1730__2016.pdf |
| Treatment Protocol Comments: | ex vivo tissue slice experiment with isotopic labeling. |
Sample Preparation:
| Sampleprep ID: | SP000395 |
| Sampleprep Summary: | Preparation of polar samples for GCMS, NMR, and IC-FTMS; Protein extraction and quantification |
| Sampleprep Protocol Filename: | Extract_Polar_Lipid_Prot_Fan.pdf Extract_Protein_Quant_Fan.pdf |
Combined analysis:
| Analysis ID | AN000600 | AN000601 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Ion Chromatography | Ion Chromatography |
| Chromatography system | Thermo Dionex ICS-5000+ | Thermo Dionex ICS-5000+ |
| Column | Unspecified | Unspecified |
| MS Type | ESI | ESI |
| MS instrument type | FT-ICR-MS | FT-ICR-MS |
| MS instrument name | Thermo Fusion Tribrid Orbitrap | Thermo Fusion Tribrid Orbitrap |
| Ion Mode | NEGATIVE | NEGATIVE |
| Units | normalized corrected peak area | normalized corrected peak area |
Chromatography:
| Chromatography ID: | CH000427 |
| Instrument Name: | Thermo Dionex ICS-5000+ |
| Column Name: | Unspecified |
| Chromatography Type: | Ion Chromatography |
MS:
| MS ID: | MS000533 |
| Analysis ID: | AN000600 |
| Instrument Name: | Thermo Fusion Tribrid Orbitrap |
| Instrument Type: | FT-ICR-MS |
| MS Type: | ESI |
| MS Comments: | IC-FTMS1: Data were adjusted as follows: 1)Get raw XIC peak areas from TF33 -> 2)correct for protein content by adjusting the signals according by wet weight -> 3) correct for NA abundance. Some compounds were assigned using a sperate standard run, others were assigned because they were the only or the highest peak in the extracted ion chromatogram. (XIC). |
| Ion Mode: | NEGATIVE |
| MS ID: | MS000534 |
| Analysis ID: | AN000601 |
| Instrument Name: | Thermo Fusion Tribrid Orbitrap |
| Instrument Type: | FT-ICR-MS |
| MS Type: | ESI |
| MS Comments: | IC-FTMS2: Data were adjusted as follows: 1)Get raw XIC peak areas from TF33 -> 2)correct for protein content by reconstituting the volumes according to tissue wet weight -> 3) correct for NA abundance. Some compounds were assigned using a sperate standard run, others were assigned because they were the only or the highest peak in the extracted ion chromatogram. (XIC). |
| Ion Mode: | NEGATIVE |
