Summary of Study ST001971

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 PR001254. The data can be accessed directly via it's Project DOI: 10.21228/M8MM7B This work is supported by NIH grant, U2C- DK119886.

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Study IDST001971
Study TitleLipid Profiling in African-American Men with Prostate Cancer
Study Summarywe examined the lipidomes from cancer-benign matched prostate tissues in PCa patients of AA and EA men to determine potential alterations in lipid metabolism which might explain the observed disparity in tumor progression.
Institute
Baylor College of Medicine
Last NameSreekumar
First NameArun
AddressOne Baylor Plaza
EmailArun.Sreekumar@bcm.edu
Phone7137983144
Submit Date2021-10-23
Analysis Type DetailLC-MS
Release Date2022-11-01
Release Version1
Arun Sreekumar Arun Sreekumar
https://dx.doi.org/10.21228/M8MM7B
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR001254
Project DOI:doi: 10.21228/M8MM7B
Project Title:Lipid Profiling in African-American Men with Prostate Cancer
Project Summary:We examined the lipidomes from cancer-benign matched prostate tissues in prostate cancer patients of African-American and European-American men to determine potential alterations in lipid metabolism which might explain the observed disparity in tumor progression.
Institute:Baylor College of Medicine
Last Name:Sreekumar
First Name:Arun
Address:one baylor Plaza
Email:Arun.Sreekumar@bcm.edu
Phone:713-798-3144

Subject:

Subject ID:SU002051
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606

Factors:

Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id Race Diagnosis
SA18505837687AA Benign
SA18505942792AA Benign
SA18506037654AA Benign
SA18506136673AA Benign
SA18506232871AA Benign
SA18506342957AA Benign
SA18506436916AA Benign
SA18506546698AA Benign
SA18506659701AA Benign
SA1850673609AA Benign
SA18506856765AA Benign
SA18506954182AA Benign
SA18507047605AA Benign
SA18507132595AA Benign
SA18507253983AA Benign
SA18507310222AA Benign
SA18507410506AA Benign
SA1850759657AA Benign
SA1850768678AA Benign
SA1850775050AA Benign
SA18507832567AA Benign
SA18507910524AA Benign
SA18508010188AA Benign
SA18508121274AA Benign
SA18508218476AA Benign
SA18508322346AA Benign
SA18508423979AA Benign
SA18508519338AA Benign
SA18508619051AA Benign
SA18508719205AA Benign
SA18508823977AA Cancer
SA18508922343AA Cancer
SA18509032870AA Cancer
SA18509132564AA Cancer
SA18509232594AA Cancer
SA18509319204AA Cancer
SA18509418473AA Cancer
SA18509536668AA Cancer
SA18509619053AA Cancer
SA18509719337AA Cancer
SA18509821275AA Cancer
SA18509953984AA Cancer
SA18510054184AA Cancer
SA18510156767AA Cancer
SA18510259703AA Cancer
SA18510310526AA Cancer
SA18510447603AA Cancer
SA18510546702AA Cancer
SA18510637653AA Cancer
SA18510737689AA Cancer
SA18510842793AA Cancer
SA18510942955AA Cancer
SA18511036914AA Cancer
SA1851113608AA Cancer
SA1851125057AA Cancer
SA18511310512AA Cancer
SA1851149660AA Cancer
SA1851158680AA Cancer
SA18511610227AA Cancer
SA18511710184AA Cancer
SA18511820480EA Benign
SA18511939907EA Benign
SA18512019567EA Benign
SA18512123868EA Benign
SA18512214908EA Benign
SA18512325923EA Benign
SA18512415780EA Benign
SA18512517637EA Benign
SA18512618345EA Benign
SA18512725055EA Benign
SA18512825248EA Benign
SA18512925944EA Benign
SA18513024775EA Benign
SA18513125271EA Benign
SA18513231630EA Benign
SA18513324783EA Benign
SA18513439117EA Benign
SA18513536361EA Benign
SA18513624786EA Cancer
SA18513739116EA Cancer
SA18513839910EA Cancer
SA18513925255EA Cancer
SA18514036357EA Cancer
SA18514125273EA Cancer
SA18514225054EA Cancer
SA18514324777EA Cancer
SA18514420482EA Cancer
SA18514517643EA Cancer
SA18514615781EA Cancer
SA18514714904EA Cancer
SA18514818353EA Cancer
SA18514919564EA Cancer
SA18515025945EA Cancer
SA18515125794EA Cancer
SA18515223870EA Cancer
SA18515326084EA Cancer
Showing results 1 to 96 of 96

Collection:

Collection ID:CO002044
Collection Summary:Frozen pathologically-verified prostate tissues (PCa and adjacent benign) for metabolite were obtained from the Baylor College of Medicine Human Tissue Acquisition and Pathology Core of the Dan L. Duncan Cancer Center. All samples were collected during radical prostatectomy with informed consent and Institutional Review Board approval and stored retrospectively in a de-identified manner in the tumor bank. All tissue samples were reviewed for their tumor content by a GU pathologist prior to the metabolomics. Tissue obtained from the cancer samples contained at least 70% tumors, while benign tissues were free of tumors upon pathological examination.
Sample Type:Adipose tissue

Treatment:

Treatment ID:TR002063
Treatment Summary:None

Sample Preparation:

Sampleprep ID:SP002057
Sampleprep Summary:We used 50 mg of tissues for sample preparation. Lipids were extracted using a modified Bligh-Dyer method. The extraction was carried out using 2:2:2 volume ratio of water/methanol/dichloromethane at room temperature after spiking internal standards (17:0LPC, 17:0PC, 17:0PE, 17:0PG, 17:0 ceramide, 17:0SM, 17:0PS, 17:0PA, 17:0TAG, 17:0MAG, DAG 16:0/18:1, CE 17:0, and 17.0-20.4 PI). The organic layer was collected and completely dried under nitrogen. Before MS analysis, the dried extract was resuspended in 100 μL of Buffer B (10:5:85 Acetonitrile/water/Isopropyl alcohol) containing 10mM NH4OAc and subjected to LC/MS. The lipidome was separated using reverse-phase chromatography.

Combined analysis:

Analysis ID AN003215 AN003216
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Shimadzu Nexera X2 Shimadzu Nexera X2
Column Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um) Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um)
MS Type ESI ESI
MS instrument type Triple TOF Triple TOF
MS instrument name ABI Sciex 5600+ TripleTOF ABI Sciex 5600+ TripleTOF
Ion Mode POSITIVE NEGATIVE
Units single intensity normalized single intensity normalized

Chromatography:

Chromatography ID:CH002373
Instrument Name:Shimadzu Nexera X2
Column Name:Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um)
Chromatography Type:Reversed phase

MS:

MS ID:MS002990
Analysis ID:AN003215
Instrument Name:ABI Sciex 5600+ TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
MS Comments:single intensity normalized by overall median
Ion Mode:POSITIVE
  
MS ID:MS002991
Analysis ID:AN003216
Instrument Name:ABI Sciex 5600+ TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
MS Comments:single intensity normalized by overall median
Ion Mode:NEGATIVE
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