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MB Sample ID: SA185109
| Local Sample ID: | 42955 |
| Subject ID: | SU002051 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU002051 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| 42955 | SA185109 | FL022759 | AA | Race |
| 42955 | SA185109 | FL022759 | Cancer | Diagnosis |
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 |
