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MB Sample ID: SA120159
| Local Sample ID: | B5 |
| Subject ID: | SU001501 |
| Subject Type: | Mammal |
| Subject Species: | Sus scrofa |
| Taxonomy ID: | 9823 |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU001501 |
| Subject Type: | Mammal |
| Subject Species: | Sus scrofa |
| Taxonomy ID: | 9823 |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| B5 | SA120159 | FL014871 | infant | Paediatric Group |
Collection:
| Collection ID: | CO001496 |
| Collection Summary: | Samples were obtained from mechanically ventilated newborn piglets or group A (<5 days, n =12), infant piglets or group B (2 weeks, n =12) and child piglets or group C (4 weeks, n =12) of Topig F-1 Large White x Landrace breed. Whole blood samples were collected in K2-EDTA tubes, and they were immediately centrifuged at 950 g for 10 min at room temperature in order to obtain plasma. The supernatant was transferred to a cryovial and stored at -80 °C until analysis. |
| Sample Type: | Blood (plasma) |
Treatment:
| Treatment ID: | TR001516 |
| Treatment Summary: | Whole blood collected in K2-EDTA tubes were immediately centrifuged at 950 g for 10 min at room temperature in order to obtain plasma. The supernatant was transferred to a cryovial and stored at -80 °C until analysis. |
| Treatment Protocol Filename: | OihaneAlboniga001_20200716_005253_PR_SP_SP.pdf |
Sample Preparation:
| Sampleprep ID: | SP001509 |
| Sampleprep Summary: | SP.pdf was included with all the details related to sample preparation. |
| Sampleprep Protocol Filename: | OihaneAlboniga001_20200716_005253_PR_SP_SP.pdf |
Combined analysis:
| Analysis ID | AN002385 | AN002386 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | Reversed phase |
| Chromatography system | Agilent 1200 | Agilent 1200 |
| Column | Agilent Zorbax SB-C18 (100 x 2.1mm,3.5um) | Agilent Zorbax SB-C18 (100 x 2.1mm,3.5um) |
| MS Type | ESI | ESI |
| MS instrument type | QTOF | QTOF |
| MS instrument name | Agilent 6530 QTOF | Agilent 6530 QTOF |
| Ion Mode | POSITIVE | NEGATIVE |
| Units | Peak Area | Peak Area |
Chromatography:
| Chromatography ID: | CH001752 |
| Instrument Name: | Agilent 1200 |
| Column Name: | Agilent Zorbax SB-C18 (100 x 2.1mm,3.5um) |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH001753 |
| Instrument Name: | Agilent 1200 |
| Column Name: | Agilent Zorbax SB-C18 (100 x 2.1mm,3.5um) |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS002227 |
| Analysis ID: | AN002385 |
| Instrument Name: | Agilent 6530 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | LC-MS.pdf with all the details related to the analysis of plasma samples is uploaded. Then, XCMS was used to process data by using the Isotopologue Parameters Optimization (IPO) package following the criteria reported by Albóniga et al. (Alboniga OE, Gonzalez O, Alonso RM, Xu Y, Goodacre R. Optimization of XCMS parameters for LC-MS metabolomics: An assessment of automated versus manual tuning and its effect on the final results. Metabolomics. 2020;16(1):14-020-1636-9) Finally, Plasma data matrix was processed with Matlab using the toolbox freely available online at https://github.com/Biospec/cluster-toolbox-v2.0. Intensity drop was corrected with the QC correction function included in the toolbox and then autoscaling was applied. Then multivariate and univariate analysis were carried out. |
| Ion Mode: | POSITIVE |
| MS ID: | MS002228 |
| Analysis ID: | AN002386 |
| Instrument Name: | Agilent 6530 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | LC-MS.pdf with all the details related to the analysis of plasma samples is uploaded. Then, XCMS was used to process data by using the Isotopologue Parameters Optimization (IPO) package following the criteria reported by Albóniga et al. (Alboniga OE, Gonzalez O, Alonso RM, Xu Y, Goodacre R. Optimization of XCMS parameters for LC-MS metabolomics: An assessment of automated versus manual tuning and its effect on the final results. Metabolomics. 2020;16(1):14-020-1636-9) Finally, Plasma data matrix was processed with Matlab using the toolbox freely available online at https://github.com/Biospec/cluster-toolbox-v2.0. Intensity drop was corrected with the QC correction function included in the toolbox and then logarithm scaling was applied. Then multivariate and univariate analysis were carried out. |
| Ion Mode: | NEGATIVE |
