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.

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Study IDST000367
Study TitleDistinctly 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 Typetracer
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
DepartmentCESB
Last NameFan
First NameTeresa
AddressRm 516 Biopharm Complex, 789 S. Limestone St.,Univ. of Kentucky, Lexington, KY 40536
Emailtwmfan@gmail.com
Phone-
Submit Date2016-03-10
Analysis Type DetailLC-MS
Release Date2016-03-21
Release Version1
Teresa Fan Teresa Fan
https://dx.doi.org/10.21228/M89C74
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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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
SA01650734_UK4913C6Glc_100ug/ml b-glucan nontumor
SA01650833_UK4913C6Glc_100ug/ml b-glucan nontumor
SA01650915_UK2113C6Glc_100ug/ml b-glucan nontumor
SA01651007_UK2113C6Glc_100ug/ml b-glucan tumor
SA01651103_UK4913C6Glc_100ug/ml b-glucan tumor
SA01651204_UK4913C6Glc_100ug/ml b-glucan tumor
SA01651331_UK4913C6Glc nontumor
SA01651432_UK4913C6Glc nontumor
SA01651513_UK2113C6Glc nontumor
SA01651605_UK2113C6Glc tumor
SA01651701_UK4913C6Glc tumor
SA01651802_UK4913C6Glc 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 chromatograph Ion chromatograph
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 chromatograph

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
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