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MB Sample ID: SA274932
| Local Sample ID: | P_118 |
| Subject ID: | SU002838 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU002838 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| P_118 | SA274932 | FL035587 | Null | Group |
Collection:
| Collection ID: | CO002831 |
| Collection Summary: | Patients included in this study (211 female subjects with median age of 43.5 years [range 19-78 years]) were followed at the French National Reference Center for SLE (Pitié-Salpêtrière Hospital, Paris, France) between January 2014 and December 2017. SLE was defined according to international guidelines (ACR) 19. Antiphospholipid syndrome (APS) was defined according to the revised Sapporo criteria 20. Each patient underwent a multi-detector CT scan (Siemens syngo.CT CaScoring) and CAC was quantified by means of the previously described Agatston scoring method 21. Duration of the disease, clinical involvements (skin, seritis, hematology, joints and nervous system), treatment regimens (steroids, methotrexate and hydroxychloroquine) and SLE variables (C3, anti-dsDNA, anti-nuclear and antiphospholipid (aPL) antibodies) are presented in Table 1. Disease activity was estimated by the Systemic Lupus Erythematosus Disease Activity Index (SLEDAI) score. The presence of cardiovascular risk factors, including hypertension, hypercholesterolemia, diabetes, obesity, smoking status, family or previous personal history of cardiovascular events and inflammation (US-CRP) was determined for all patients (Table 1). Patients were classified into 3 groups of coronary heart disease (CHD) risk according to the calcium score as defined by the Multi-Ethnic Study of Atherosclerosis (MESA) study 22 (low, CAC=0; moderate, 0 < CAC < 100, and high, CAC > 100). |
| Sample Type: | Blood (plasma) |
Treatment:
| Treatment ID: | TR002847 |
| Treatment Summary: | A blood sample was collected at the day of the CT scan for each patient by venipuncture from the antecubital vein into sterile BD Vacutainer tubes containing clot activator. Serum was separated immediately by low-speed centrifugation at 2500 rpm for 20 min at 4°C and was stored at -80°C until use. |
Sample Preparation:
| Sampleprep ID: | SP002844 |
| Sampleprep Summary: | Serum lipids were extracted using a modified Folch method 26. Briefly, 10 µl serum supplemented with a mixture of internal standards were extracted using 1600 μl of acidified methanol:0.05N HCl (1:1 v/v) and 800 μl chloroform in the presence of an antioxidant, butylated hydroxytoluene. The lower organic phase was dried and lipids were reconstituted into 40µl of LC-MS compatible solvent and were quantified by LC-MS/MS. |
Combined analysis:
| Analysis ID | AN004429 | AN004430 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | HILIC | HILIC |
| Chromatography system | Shimadzu 20AD | Shimadzu 20AD |
| Column | Phenomenex Kinetex HILIC (150 x 3mm,2.6um) | Phenomenex Kinetex HILIC (150 x 3mm,2.6um) |
| MS Type | ESI | ESI |
| MS instrument type | QTRAP | QTRAP |
| MS instrument name | ABI Sciex 4000 QTrap | ABI Sciex 4000 QTrap |
| Ion Mode | POSITIVE | POSITIVE |
| Units | relative difference | relative difference |
Chromatography:
| Chromatography ID: | CH003328 |
| Instrument Name: | Shimadzu 20AD |
| Column Name: | Phenomenex Kinetex HILIC (150 x 3mm,2.6um) |
| Column Temperature: | 45 |
| Flow Gradient: | - |
| Flow Rate: | 300ul/min |
| Solvent A: | 100% water; 0.2% acetic acid; 30mM ammonium acetate |
| Solvent B: | 100% acetonitrile; 0.2% acetic acid |
| Chromatography Type: | HILIC |
MS:
| MS ID: | MS004176 |
| Analysis ID: | AN004429 |
| Instrument Name: | ABI Sciex 4000 QTrap |
| Instrument Type: | QTRAP |
| MS Type: | ESI |
| MS Comments: | MRM acquisition of low abundant phospho- and sphingolipid classes: PS, PA, LPC, LPE, cer, PG, PI, PE, PE-P this acquisition is called "short" |
| Ion Mode: | POSITIVE |
| MS ID: | MS004177 |
| Analysis ID: | AN004430 |
| Instrument Name: | ABI Sciex 4000 QTrap |
| Instrument Type: | QTRAP |
| MS Type: | ESI |
| MS Comments: | MRM acquisition of abundant lipids following 100fold dilution for PC and SM analysis. This acquisition is called "short10x" |
| Ion Mode: | POSITIVE |
