Table 2 Datasets analyzed by RCR for V-IPN augmentation and evaluation
Dataset name | Dataset ID | PubMed ID | Species | Experimental context | Tissue/cell type | Perturbation | Timepoint | Independent endpoint | Control | ||
|---|---|---|---|---|---|---|---|---|---|---|---|
Model Building Datasets | Hs_EC_oxPAP_vs_PAP | GSE29903 | 16912112 (Gargalovic, 2006) | Hs | in vitro | HAECs | oxPAPC (40 μg/ml) | 4 h | IL8 induction | PAPC | |
(40 μg/ml) | |||||||||||
Mm_Ao_32w_ApoE_vs_wt | GSE2372 | 19139167 (Grabner, 2009) | Mm | in vivo | Aorta | ApoE-/- | 32 wk of age | Aortic morphometry, IHC, FACS | Wild-type mice (C57BL/6 J) | ||
Mm_Ao_78w_ApoE_vs_wt | GSE10000 | 78 wk of age | |||||||||
Test Datasets | Hs_EC_GFP_oxLDL_vs_ct | GSE13139 | 19279231 (Mattaliano, 2009) | Hs | in vitro | HAECs (cell line) | GFP overexp | oxLDL | 24 h | IL8 induction | Untreated |
Hs_EC_LOX1_oxLDL_vs_ct | LOX-1 overexp | ||||||||||
Hs_EC_oxPAP_vs_ct | GSE20060 | 20170901 (Romanoski, 2010) | Hs | in vitro | Primary HAECs | Ox-PAPC (40 μg/ml) | 4 h | eQTL analysis | Untreated | ||
Hs_athCA_vs_ctIMA | GSE40231 | 19997623 (Hagg, 2009) | Hs | in vivo | Coronary artery | Atherosclerotic lesions | 66 ± 8 yr of age | Angiography, blood cytokines | Paired unaffected artery (IMA) | ||
Mm_Ao_16w_ApoE_CS_vs_sham | E-MTAB-1696 | - | Mm | in vivo (ApoE-/-) | Aorta | CS exposure | 13-16 wk of age; 30 d exposure | Lipoprotein profile | Fresh air exposure | ||