TABLE 2.
Individual candidate transcripts in brain for predisposition to voluntary alcohol consumption. Strain mean normalized expression estimates and strain mean voluntary alcohol consumption values were used to determine Spearman’s rank correlation coefficients. Strain mean normalized expression estimates were used in a marker regression to determine expression quantitative trait loci (eQTL) and corresponding logarithm of the odds (LOD) scores. Empirical genome-wide expression QTL p-values were calculated using 1,000 permutations. Transcripts are ordered by their p-value related to correlation with alcohol consumption. The total number of transcripts generated from the same gene in the detected above background transcriptome, and the source(s) identifying the transcripts, is also shown. All transcripts possessed local eQTL with the exception of the transcript from the Map3k7 gene (MSTRG.23809.1).
| Transcript ID | Gene symbol(s) | Gene description(s) | Source | Transcript correlation with alcohol consumption (correlation coefficient (p-value)] | Expression QTL LOD score (genome-wide (p-value)] | Expression QTL (chromosome: Position (Mb)] | Number of brain transcripts identified in HXB/BXH RI panel | Number of Ensembl/StringTie/aptardi transcripts |
|---|---|---|---|---|---|---|---|---|
| ENSRNOT00000072618 | E2f2 | E2F transcription factor | Ensembl | −0.66 (0.0013) | 13.88 (<0.001) | 5:154.8 | 1 | 1/0/0 |
| MSTRG. 1868.13 | Tmem9b | Transmembrane protein 9b | StringTie | −0.62 (0.0030) | 5.26 (<0.001) | 1:173.9 | 11 | 0/10/1 |
| MSTRG.1793.4 | Trim68 | Tripartite motif-containing 68 | StringTie | 0.61 (0.0031) | 13.06 (<0.001) | 1:167.2 | 4 | 3/1/0 |
| ENSRNOT00000075003 | Tmem159 | Transmembrane protein 159 | Ensembl | −0.60 (0.0038) | 9.33 (<0.001) | 1:189.2 | 1 | 1/0/0 |
| MSTRG.23809.1 | Map3k7 | Mitogen activated protein kinase kinase kinase 7 | StringTie | 0.60 (0.0041) | 5.92 (0.004) | 5:46.8 | 2 | 1/1/0 |
| ENSRNOT00000090867 | Oas3 | 2′-5′-oligoadenylate synthase 3 | Ensembl | 0.60 (0.0043) | 9.29 (<0.001) | 12:40.5 | 1 | 1/0/0 |
| ENSRNOT00000024093.1 | Aldh1a7 | Aldehyde dehydrogenase, cytosolic 1 | aptardi | −0.59 (0.0051) | 14.28 (<0.001) | 1:237.6 | 1 | 0/0/1 |
| ENSRNOT00000001752 | P2rx4 | Purinergic receptor P2X 4 | Ensembl | −0.58 (0.0059) | 9.81 (<0.001) | 12:39.1 | 2 | 1/1/0 |
| MSTRG. 1874.1 | Tmem41b | Transmembrane protein 41B | StringTie | 0.57 (0.0068) | 9.37 (<0.001) | 1:173.9 | 3 | 1/2/0 |
| MSTRG. 2084.2 | Lat, Spns1, Nfatc2ip | Linker for activation of T-cells family member 1, Protein spinster homolog 1, NFATC2-interacting protein | StringTie | 0.56 (0.0089) | 7.65 (<0.001) | 1:197.0 | 7 | 1/6/0 |
| MSTRG.1526.1 | Pex11a | Peroxisomal membrane protein 11A | StringTie | 0.55 (0.0093) | 11.02 (<0.001) | 1:141.0 | 2 | 1/1/0 |