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MB Sample ID: SA115784
| Local Sample ID: | MICH-01509 |
| Subject ID: | SU001485 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU001485 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| MICH-01509 | SA115784 | FL014427 | Diabetic non neuropathy | Group |
Collection:
| Collection ID: | CO001480 |
| Collection Summary: | At the mean 13 year follow up after T2D diagnosis, blood samples were collected from patients the same day as anthropometrics and DPN assessment. Plasma was collected in purple EDTA tubes with 10 mL of buffy coat, inverted 10 times, incubated for 30-90 minutes at room temperature, and centrifuged at 3000 rpm for 10 minutes. The plasma supernatant was collected by aspirating plasma to approximately 5 mm above the buffy coat and plasma samples were stored in 0.5 mL aliquots at -80C prior to metabolomics analysis. |
| Sample Type: | Blood (plasma) |
Treatment:
| Treatment ID: | TR001500 |
| Treatment Summary: | NA |
Sample Preparation:
| Sampleprep ID: | SP001493 |
| Sampleprep Summary: | Samples were prepared using the automated MicroLab STAR® system from Hamilton Company. Several recovery standards were added prior to the first step in the extraction process for QC purposes. To remove protein, dissociate small molecules bound to protein or trapped in the precipitated protein matrix, and to recover chemically diverse metabolites, proteins were precipitated with methanol under vigorous shaking for 2 min (Glen Mills GenoGrinder 2000) followed by centrifugation. The resulting extract was divided into five fractions: two for analysis by two separate reverse phase (RP)/UPLC-MS/MS methods with positive ion mode electrospray ionization (ESI), one for analysis by RP/UPLC-MS/MS with negative ion mode ESI, one for analysis by HILIC/UPLC-MS/MS with negative ion mode ESI, and one sample was reserved for backup. Samples were placed briefly on a TurboVap® (Zymark) to remove the organic solvent. The sample extracts were stored overnight under nitrogen before preparation for analysis. |
Combined analysis:
| Analysis ID | AN002361 |
|---|---|
| Analysis type | MS |
| Chromatography type | HILIC |
| Chromatography system | Waters Acquity |
| Column | Waters Acquity CSH C18 (100 x 2.1mm,1.7um) |
| MS Type | ESI |
| MS instrument type | UPLC-MS |
| MS instrument name | Waters Acquity |
| Ion Mode | POSITIVE |
| Units | peak area |
Chromatography:
| Chromatography ID: | CH001731 |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters Acquity CSH C18 (100 x 2.1mm,1.7um) |
| Chromatography Type: | HILIC |
MS:
| MS ID: | MS002203 |
| Analysis ID: | AN002361 |
| Instrument Name: | Waters Acquity |
| Instrument Type: | UPLC-MS |
| MS Type: | ESI |
| MS Comments: | The informatics system consisted of four major components, the Laboratory Information Management System (LIMS), the data extraction and peak-identification software, data processing tools for QC and compound identification, and a collection of information interpretation and visualization tools for use by data analysts. The hardware and software foundations for these informatics components were the LAN backbone, and a database server running Oracle 10.2.0.1 Enterprise Edition. |
| Ion Mode: | POSITIVE |
