Table 1.

Genes not interrogated by microarray and significantly differentially expressed by RNA-Seq

Ensembl IDDirectionGene biotypeGene nameDescriptionAssociated gene databaseSourceGene status
ENSG00000215182Up SptMUC5ACmucin 5AC, oligomeric mucus/gel-formingHGNC cHK
ENSG00000225972Up SpsRP5–857K21.9cb VHK
ENSG00000160932Up SpcLY6Elymphocyte antigen 6 complex, locus EHGNC aEK
ENSG00000250477Up SpcAL161445.1BAG family molecular chaperone regulator 1 (BAG-1)(Bcl-2-associated athanogene 1)cb EEK
ENSG00000235058Up SptAC002481.5cb VHP
ENSG00000225410Up SpsAC107016.2cb EEN
ENSG00000233458Up SpcAC123789.1Putative uncharacterized protein ENSP00000403148cb EEK
ENSG00000237411Up SptAC003043.2cb VHN
ENSG00000214274Up SpcANGangiogenin, ribonuclease, RNase A family, 5HGNC cEK
ENSG00000234045Up SpcAC069356.1cb EEK
ENSG00000232581Up SptAC079742.4cb VHP
ENSG00000215089Up SpsRP13–138P15.3cb VEK
ENSG00000183336Up SpcBOLA2bolA homolog 2 (E. coli)HGNC aEK
ENSG00000243135Up SpcUGT1A3UDP glucuronosyltransferase 1 familyHGNC cEK
ENSG00000241119Up SpcUGT1A9UDP glucuronosyltransferase 1 family, polypeptide A9HGNC cEK
ENSG00000181625Up SpcGIYD1GIY-YIG domain containing 1HGNC cEK
ENSG00000235867Up SpcAC013356.2Cell growth-inhibiting protein 48ccb EEK
ENSG00000248581Up SlincRNAAC005618.1cb EEN
ENSG00000240831Dn SrRNA psAC112777.1cb EEN
ENSG00000242604Dn SrRNA psAL512503.1cb EEN
ENSG00000249529Dn SpcAC046176.2Tyrosine-protein kinase Lyncb EEK
ENSG00000232150Dn SpsRP11–480P3.1cb VHK
ENSG00000165807Dn SpcC14orf50Uncharacterized protein C14orf50HGNC cEK
ENSG00000249037Dn SpcAL121852.1sec1 family domain-containing protein 1 isoform bcb EEK
ENSG00000235878Dn SpcAP001468.1cDNA FLJ46393 fis, clone THYMU3002887cb EEK
ENSG00000161055Up CpcSCGB3A1secretoglobin, family 3A, member 1HGNC cEK
ENSG00000057149Up CpcSERPINB3serpin peptidase inhibitor, clade B (ovalbumin), member 3HGNC cEK
ENSG00000206072Up CpcSERPINB11serpin peptidase inhibitor, clade B (ovalbumin), member 11 (gene/pseudogene)HGNC cHK
ENSG00000129824Up CpcRPS4Y1ribosomal protein S4, Y-linked 1HGNC cEK
ENSG00000240831Up CrRNA psAC112777.1cb EEN
ENSG00000244067Up CpcGSTA2glutathione S-transferase alpha 2HGNC cEK
ENSG00000182853Up CpcVMO1vitelline membrane outer layer 1 homolog (chicken)HGNC aEK
ENSG00000186261Up CpcAC027277.1MSTP160cb EEK
ENSG00000234964Up CpsAP000640.1cb EEN
ENSG00000232150Up CpsRP11–480P3.1cb VHK
ENSG00000232220Up CptAC008440.5cb VHP
ENSG00000247017Up ClincRNAAC009520.1cb EEN
ENSG00000214265Up CpcSNURFSNRPN upstream reading frameHGNC cEK
ENSG00000233458Up CpcAC123789.1Putative uncharacterized protein ENSP00000403148cb EEK
ENSG00000224543Up CpsAC012318.1cb EEN
ENSG00000170509Up CpcHSD17B13hydroxysteroid (17-beta) dehydrogenase 13HGNC cEK
ENSG00000188643Up CpcS100A16S100 calcium binding protein A16HGNC cEK
ENSG00000006075Up CpcCCL3chemokine (C-C motif) ligand 3HGNC cEK
ENSG00000215182Dn CptMUC5ACmucin 5AC, oligomeric mucus/gel-formingHGNC cHK
ENSG00000206172Dn CpcHBA1hemoglobin, alpha 1HGNC cEK
ENSG00000204950Dn CpcLRRC10Bleucine rich repeat containing 10BHGNC aEK
ENSG00000226284Dn CpsRP3–470L14.1cb VHK
ENSG00000239930Dn CptAP001625.4cb VHN
ENSG00000227053Dn CptRP11–395B7.4cb VHN
ENSG00000248411Dn ClincRNAAC084125.1cb EEN

NOTE: The top 25 most highly expressed genes are listed for each group (see Supplementary Tables S6 and S7 for the complete list). The following information is given for each gene based on Ensembl v59 annotation: Ensembl Gene ID, direction of change, gene biotype (pc = protein coding, ps = pseudogene, pt = processed transcript, rRNA ps = rRNA pseudogene), gene name, gene description, associated gene database (cb E = Clone-based (Ensembl), cb V = Clone-based (Vega), HGNC c = HGNC (curated), HGNC a = HGNC automatic), source (E = Ensembl, H = Havana), and gene status (K = known, N = novel, P = putative).