Return to study ST000553 main page
MB Sample ID: SA028729
| Local Sample ID: | Urine_UT_Rep4 |
| Subject ID: | SU000575 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Species Group: | Mammals |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU000575 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Species Group: | Mammals |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| Urine_UT_Rep4 | SA028729 | FL007011 | Urine | Sample type |
Collection:
| Collection ID: | CO000569 |
| Collection Summary: | UT urine and plasma reference pools were supplied by the CHEAR Emory Lab Hub |
| Sample Type: | Blood |
Treatment:
| Treatment ID: | TR000589 |
| Treatment Summary: | Not available |
Sample Preparation:
| Sampleprep ID: | SP000582 |
| Sampleprep Summary: | Sample preparation Plasma: Plasma samples were stored at -80°C until the day of the analysis. Metabolite extraction was performed by adding 300μL of cold LC-MS grade methanol (containing ISTDs) to 100μL of plasma. Samples were centrifuged to pellet the precipitate (13,000g, 15 min, 4°C). An aliquot of 60μL of the supernatants was transferred to 2 separate LC vials for Reversed-phase chromatography and positive and negative ESI mode detection. Extracts were evaporated to dryness using a speed vac system. The extracts were reconstituted using 50μL of methanol on the day of analysis. In case of the HILIC analysis (positive and negative ESI detection), the extracts were reconstituted using 50μL acetonitrile: water in 8:2 ratio. Urine: Urine samples were stored at -80°C until the day of the analysis. Metabolite extraction was performed by adding 180μL of Acetonitrile (containing ISTDs) to 20μL of urine. Samples were centrifuged to pellet the precipitate (13,000g, 15 min, 4°C). An aliquot of 40μL of the supernatants was transferred to 4 separate LC vials (RP and HILIC mode, positive and negative ESI analysis). |
Combined analysis:
| Analysis ID | AN000845 | AN000846 | AN000847 | AN000848 |
|---|---|---|---|---|
| Analysis type | MS | MS | MS | MS |
| Chromatography type | Reversed phase | Reversed phase | HILIC | HILIC |
| Chromatography system | Agilent 1290 Infinity II | Agilent 1290 Infinity II | Agilent 1290 Infinity II | Agilent 1290 Infinity II |
| Column | Agilent Zorbax Eclipse Plus C18 (100 x 2.1mm, 1.8 um) | Agilent Zorbax Eclipse Plus C18 (100 x 2.1mm, 1.8 um) | EMD Millipore ZIC-HILIC (100 x 2.1mm,3.5um) | EMD Millipore ZIC-HILIC (100 x 2.1mm,3.5um) |
| MS Type | ESI | ESI | ESI | ESI |
| MS instrument type | QTOF | QTOF | QTOF | QTOF |
| MS instrument name | Agilent 6550 QTOF | Agilent 6550 QTOF | Agilent 6550 QTOF | Agilent 6550 QTOF |
| Ion Mode | POSITIVE | NEGATIVE | POSITIVE | NEGATIVE |
| Units | Peak Area | Peak Area | Peak Area | Peak Area |
Chromatography:
| Chromatography ID: | CH000604 |
| Chromatography Summary: | Metabolites were separated using a C18 column, Zorbax Eclipse Plus C18 (2.1 x 100 mm, 1.8μm particle size), mobile phase A: water and mobile phase B: IPA/ACN(90:10) both with 0.1% HCOOH at a flow rate of 400μL/min injecting 2μL of extracts on a 1290 Infinity II LC System (Agilent Technologies). |
| Instrument Name: | Agilent 1290 Infinity II |
| Column Name: | Agilent Zorbax Eclipse Plus C18 (100 x 2.1mm, 1.8 um) |
| Flow Rate: | 400µL/min |
| Solvent A: | 100% water; 0.1% formic acid |
| Solvent B: | 90% isopropanol/10% acetonitrile; 0.1% formic acid |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH000605 |
| Chromatography Summary: | Polar metabolites were analyzed using a EMD Millipore ZIC-HILIC (100 mm x 2.1 mm ID, 3.5μm) column, mobile phase A: water with 0.1% formic acid and B: Acetonitrile with 0.1% formic acid at a flow rate 300μL/min. 2μL of extract were injected on a 1290 Infinity II LC System (Agilent Technologies). For the negative ionization mode, mobile phase A was 10mM ammonium acetate and B was acetonitrile. |
| Instrument Name: | Agilent 1290 Infinity II |
| Column Name: | EMD Millipore ZIC-HILIC (100 x 2.1mm,3.5um) |
| Flow Rate: | 300µL/min |
| Solvent A: | Pos mode:100% water; 0.1% formic acid, Neg mode:100% water; 10 mM ammonium acetate |
| Solvent B: | Pos mode:100% acetonitrile; 0.1% formic acid, Neg mode:100% acetonitrile |
| Chromatography Type: | HILIC |
MS:
| MS ID: | MS000746 |
| Analysis ID: | AN000845 |
| Instrument Name: | Agilent 6550 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
| MS ID: | MS000747 |
| Analysis ID: | AN000846 |
| Instrument Name: | Agilent 6550 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| Ion Mode: | NEGATIVE |
| MS ID: | MS000748 |
| Analysis ID: | AN000847 |
| Instrument Name: | Agilent 6550 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
| MS ID: | MS000749 |
| Analysis ID: | AN000848 |
| Instrument Name: | Agilent 6550 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| Ion Mode: | NEGATIVE |
