Table 4.
Representative cord blood genes altered in bronchopulmonary dysplasia (BPD)
| Functions and Pathways | p-adj | dEx | Gene symbol | Gene description |
|---|---|---|---|---|
| Cell cycle regulation/arrest, gene expression | 0.0000138287972305428 | − 0.61 | CDC14B* | Cell division cycle 14B |
| 0.018196732932063 | − 0.12 | PTPA | Protein phosphatase 2 phosphatase activator | |
| 0.018196732932063 | − 0.19 | PRDM2 | PR/SET domain 2 | |
| 0.0245160911780221 | − 0.37 | RBL2 | RB transcriptional corepressor-like 2 | |
| 0.0270275178681041 | − 0.73 | PPP2CA | Protein phosphatase 2 catalytic subunit alpha | |
| 0.0305102740202983 | − 0.56 | CENPU | Centromere protein U | |
| 0.0363416990685133 | − 0.29 | SOX6 | SRY-box transcription factor 6 | |
| 0.036719398944197 | − 0.85 | CCNY | Cyclin Y | |
| 0.0490173110568865 | − 0.58 | CDK6 | Cyclin-dependent kinase 6 | |
| Morbidity/mortality, developmental disorder, skeletal and muscular system development/ functions, connective tissue disorders | 0.00953646339176695 | − 0.61 | IGFBP2 | Insulin-like growth factor-binding protein 2 |
| 0.0112129962231962 | − 0.45 | HBZ | Hemoglobin subunit zeta | |
| 0.0139799604731326 | − 0.13 | CASP4 | Caspase 4 | |
| 0.04143444 | − 0.77 | ALDH5A1 | Aldehyde dehydrogenase 5 family member A1 | |
| 0.0442867038269876 | − 1.00 | ALOX12 | Arachidonate 12-lipoxygenase, 12S type | |
| 0.0000349238050329156 | − 0.54 | SSB* | Small RNA-binding exonuclease protection factor La | |
| 0.0141776721977405 | − 0.93 | COPS8 | COP9 signalosome subunit 8 | |
| 0.0171815019940262 | − 0.78 | GNPNAT1 | glucosamine-phosphate N-acetyltransferase 1 | |
| 0.0193484434496371 | 0.18 | SDC1 | Syndecan 1 | |
| 0.0194007739744968 | − 0.96 | BMPR2 | Bone morphogenetic protein receptor type 2 | |
| 0.0210884700904177 | − 0.73 | MYCN | MYCN proto-oncogene, bHLH transcription factor | |
| 0.0349205290474328 | 1.16 | VSIG10 | V-set and immunoglobulin domain containing 10 | |
| 0.0369693192354005 | − 1.58 | MIB1 | MIB E3 ubiquitin protein ligase 1 | |
| 0.0428609710686184 | 0.21 | SKI | SKI proto-oncogene | |
| 0.043587 | − 0.29 | SMARCC1 | SWI/SNF related, matrix-associated, actin-dependent regulator of chromatin subfamily c member 1 | |
| 0.0435831755630875 | 0.23 | DAB2 | DAB adaptor protein 2 | |
| 0.0465058827027208 | − 1.06 | UBA3 | Ubiquitin-like modifier activating enzyme 3 | |
| Respiratory disease | 0.00309322755884207 | − 0.69 | ITGA6* | Integrin subunit alpha 6 |
| 0.00579452607644582 | − 0.81 | FUBP1 | Far upstream element-binding protein 1 | |
| 0.00817443536604729 | 0.51 | AGER | Advanced glycosylation end-product-specific receptor | |
| 0.0133236306671656 | − 1.27 | ATMIN | ATM interactor | |
| 0.0352336910664588 | 0.74 | CA4 | Carbonic anhydrase 4 | |
| 0.0418477880132438 | − 1.51 | BACH2 | BTB domain and CNC homolog 2 | |
| Hematological disease | 0.009801833424076 | − 0.92 | PDE7A | Phosphodiesterase 7A |
| 0.0166001613836398 | − 0.78 | LMAN1 | Lectin, mannose-binding 1 | |
| 0.0326065857959076 | − 0.72 | MCFD2 | Multiple coagulation factor deficiency 2, ER cargo receptor complex subunit | |
| 0.0222521938060266 | − 0.76 | F13A1 | Coagulation factor XIII A chain | |
| Mitochondrial biogenesis, free radical scavenging | 0.00155622393947997 | 1.68 | OLR1* | Oxidized low density lipoprotein receptor 1 |
| 0.00157141424422093 | − 0.04 | NOS3* | Nitric oxide synthase 3 | |
| 0.00342586086803695 | − 1.39 | NADK2 | NAD kinase 2, mitochondrial | |
| 0.00420515005042535 | 0.70 | ADCY6 | Adenylate cyclase 6 | |
| 0.0145472161400915 | − 1.36 | OPA1 | OPA1 mitochondrial dynamin-like GTPase | |
| 0.0145472161400915 | − 0.43 | PANK2 | Pantothenate kinase 2 | |
| 0.0194007739744968 | − 0.51 | PRXL2A | Peroxiredoxin-like 2A | |
| 0.0194007739744968 | − 0.35 | SLC25A13 | solute carrier family 25, member 13 | |
| 0.0241780091500456 | − 0.72 | ACSL3 | Acyl-CoA synthetase long-chain family member 3 | |
| 0.0337481033423519 | − 0.71 | CPT2 | Carnitine palmitoyltransferase 2 | |
| 0.0400303820036726 | 0.11 | MFN1 | Mitofusin 1 | |
| 0.0428609710686184 | − 0.49 | NDUFS1 | NADH:ubiquinone oxidoreductase core subunit S1 |
A total of 273 genes were significant varied (*Bonferroni and/or false discovery rate < 0.05) between BPD (n = 6) and non-BPD (n = 16) cord blood cells as determined by cDNA microarray analysis (Illumina HumanHT-12 WG-DASL V4.0 R2 expression beadchip). Ingenuity, Reactome, and ToppGene pathway analyses tools used to determine enriched functional categories and pathways. dEx = expression difference (Log2) in BPD relative to non-BPD. Full list of the differentially expressed genes are in Additional file 1: Table S8