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MB Sample ID: SA093680
| Local Sample ID: | 8_4 |
| Subject ID: | SU001361 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU001361 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| 8_4 | SA093680 | FL013411 | LDLR-KO | Genotype |
| 8_4 | SA093680 | FL013411 | High fat | Diet |
Collection:
| Collection ID: | CO001355 |
| Collection Summary: | Male WT C57BL6 or LDL receptor knockout mice (Jackson Laboratory) were fed a normal cholesterol/normal fat (NCNF) diet or a high cholesterol/high fat (HCHF) diet (Harlan Teklad, catalog # 96121 including 21% milk fat and 1.25% cholesterol) for 12 weeks in an IACUC-approved animal facility. Cells were harvested from the peritoneal cavity 4 days after i.p. administration of 3% thioglycollate medium. Cells were immediately counted, aliquoted, pelleted and sent for cDNA microarray analysis and lipid measurement. For all other experiments primary cells were isolated from male 6–8 week-old C57BL6 mice (Charles River Laboratories). |
| Sample Type: | Macrophages |
Treatment:
| Treatment ID: | TR001376 |
| Treatment Summary: | Mouse thioglycollate-elicited macrophages and bone marrow derived macrophages were obtained and cultured as described previously (Heinz et al., 2010). For various ligand treatments, cells were in Phenol-red free RPMI-1640 (Invitrogen) supplemented with either 10% heat-inactivated FBS (Hyclone) or 10% lipid-deficient FBS (Hyclone) for 24hr before treatment, then treated with either 1µM GW3965, 0.25-20µM desmosterol, or 0.3-30µg/ml cholesterol for 12-24hr. 50µM melavonate and 10µM Mevastatin (Sigma) were added to media in desmosterol response experiments. For TLR repression studies, cells were cultured in medium containing Phenol-red free RPMI 1640 (Invitrogen) with either heat-inactivated FBS (Hyclone) or lipid-deficient FBS (Hyclone) for 24hr, then pretreated with either 20-30µM desmosterol, 50µg/ml cholesterol, 5µM triparanol, or 50-100µM 9Z-palmitoleic acid for 18hr. Cells were stimulated with Pam3CSK4 (300ng/ml), PolyI:C (50ng/ml), LPS (100ng/ml), TNFa (30ng/ml), or KLA (100ng/ml) for 6hr. See Extended Experimental Procedures for additional details at https://doi.org/10.1016/j.cell.2012.06.054 |
Sample Preparation:
| Sampleprep ID: | SP001369 |
| Sampleprep Summary: | The various extraction procedures and lipidomic analyses for each lipid class are described in the publication |
Combined analysis:
| Analysis ID | AN002142 |
|---|---|
| Analysis type | MS |
| Chromatography type | |
| Chromatography system | Several |
| Column | Several |
| MS Type | Other |
| MS instrument type | Several |
| MS instrument name | Several |
| Ion Mode | UNSPECIFIED |
| Units | pmol/1E6 cells |
Chromatography:
| Chromatography ID: | CH001568 |
| Chromatography Summary: | See publication for details publication |
| Chromatography Comments: | See publicationpublication for details |
| Instrument Name: | Several |
| Column Name: | Several |
MS:
| MS ID: | MS001994 |
| Analysis ID: | AN002142 |
| Instrument Name: | Several |
| Instrument Type: | Several |
| MS Type: | Other |
| MS Comments: | See publicationpublication for details |
| Ion Mode: | UNSPECIFIED |
