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MB Sample ID: SA047867
| Local Sample ID: | 23_Sample_52_082614 |
| Subject ID: | SU000892 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Species Group: | Human |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU000892 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Species Group: | Human |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| 23_Sample_52_082614 | SA047867 | FL009399 | HCC | Patient group |
| 23_Sample_52_082614 | SA047867 | FL009399 | EA | RACE |
Collection:
| Collection ID: | CO000886 |
| Collection Summary: | Blood collection Adult patients were recruited from the hepatology clinic at MedStar Georgetown University Hospital (MGUH).All participants provided informed consent to the study approved by the Institutional Review Board (IRB) at Georgetown University. The patients were diagnosed to have liver cirrhosis on the basis of established clinical, laboratory and/or imaging criteria. Cases were diagnosed to have HCC based on well-established diagnostic imaging criteria and/or histology. Clinical stages for HCC cases were determined based on the tumor-node-metastasis (TNM) staging system. Controls were required to be HCC free for at least 6 months from the time of study entry. Race information was collected from patients’ self-report. Through peripheral venipuncture, single blood sample was drawn into 10 mL BD Vacutainer sterile vacuum tube in the presence of EDTA anticoagulant. |
| Collection Protocol ID: | 1_Collection |
| Sample Type: | Blood |
Treatment:
| Treatment ID: | TR000906 |
| Treatment Summary: | Blood treatment The blood was immediately centrifuged at 1000g for 10 minutes at room temperature. The plasma supernatant was carefully collected and centrifuged at 2500g for 10 minutes at room temperature. After aliquoting, plasma was kept frozen at −80°C until use. |
| Treatment Protocol ID: | 2_Treatment |
Sample Preparation:
| Sampleprep ID: | SP000899 |
| Sampleprep Summary: | Metabolite extraction Plasma metabolites were extracted by adding 1mL of a working solution composed of acetonitrile, isopropanol and water (3:3:2) containing isotope-labeled internal standards at a concentration of 1.25 μg/mL (Tyrosine-d2, L-glutamic-2,3,3,4,4-d5 acid, L-alanine-2,3,3,3-d4, L-phenyl-d5-alanine-2,3,3,-d3, Glycine-d5, Myristic acid d27) to 30μL of plasma in order to evaluate the quality of metabolites extraction. After vortexing, samples were centrifuged at 14,500g for 15 minutes at room temperature. Each supernatant was then concentrated to dryness in speedvac. The dried samples were kept at -20°C until derivatization prior to analysis by GC-MS. 20μL of a 20mg/mL methoxyamine hydrochloride in pyridine was added to the dried extracts, vortexed and incubated at 30°C for 90 minutes. After returning the samples at room temperature, 80μL of MSTFA was added, vortexed and incubated at 30°C for 30 minutes. Samples were then centrifuged at 14,500rpm for 15 minutes, and 60μL of the supernatant was transferred into 250μL clear glass autosampler vials. |
| Sampleprep Protocol ID: | 3_SamplePrep |
Combined analysis:
| Analysis ID | AN001390 |
|---|---|
| Analysis type | MS |
| Chromatography type | GC |
| Chromatography system | Agilent 7890A |
| Column | Agilent DB_5MS + DG |
| MS Type | EI |
| MS instrument type | Single quadrupole |
| MS instrument name | Agilent 5975C |
| Ion Mode | POSITIVE |
| Units | RAW intensity |
Chromatography:
| Chromatography ID: | CH000974 |
| Instrument Name: | Agilent 7890A |
| Column Name: | Agilent DB_5MS + DG |
| Chromatography Type: | GC |
MS:
| MS ID: | MS001282 |
| Analysis ID: | AN001390 |
| Instrument Name: | Agilent 5975C |
| Instrument Type: | Single quadrupole |
| MS Type: | EI |
| Ion Mode: | POSITIVE |
