GeneSet Title
Tier III
Human
1307 Genes
GS408899
LABEL: DE lncRNA from human NAc associated with AD vs control_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier III
Human
1307 Genes
GS408900
LABEL: DE lncRNA from human NAc associated with AD vs control_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier V
Human
12598 Genes
GS408901
LABEL: DE PCG from human NAc associated with AD vs control_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier V
Human
12598 Genes
GS408902
LABEL: DE PCG from human NAc associated with AD vs control_logFCDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier III
Human
12576 Genes
GS409030
LABEL: DE PCG from human NAc associated with AD vs control_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier III
Human
12576 Genes
GS409031
LABEL: DE PCG from human NAc associated with AD vs control_logFCDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier IV
Human
2569 Genes
GS409211
LABEL: DE PCG from human NAc associated with AD vs control (p<0.10)_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier IV
Human
2569 Genes
GS409212
LABEL: DE PCG from human NAc associated with AD vs control (p<0.10)_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier IV
Human
2569 Genes
GS409213
LABEL: DE PCG from human NAc associated with AD vs control (p<0.10)_logFCDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier IV
Human
86 Genes
GS409214
LABEL: DE pseudogenes from human NAc associated with AD vs control (p<0.10)_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier IV
Human
86 Genes
GS409215
LABEL: DE pseudogenes from human NAc associated with AD vs control (p<0.10)_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier III
Human
87 Genes
GS409216
LABEL: DE pseudogenes from human NAc associated with AD vs control (p<0.10)_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier III
Human
87 Genes
GS409217
LABEL: DE pseudogenes from human NAc associated with AD vs control (p<0.10)_logFCDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier IV
Human
329 Genes
GS409218
LABEL: DE lncRNA from human NAc associated with AD vs control (p<0.10)_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier IV
Human
329 Genes
GS409219
LABEL: DE lncRNA from human NAc associated with AD vs control (p<0.10)_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier III
Human
329 Genes
GS409220
LABEL: DE lncRNA from human NAc associated with AD vs control (p<0.10)_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier III
Human
329 Genes
GS409221
LABEL: DE lncRNA from human NAc associated with AD vs control (p<0.10)_logFCDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier III
Human
3646 Genes
GS409222
LABEL: DE lncRNA from human NAc associated with AD vs control (p<0.10)_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier III
Human
3646 Genes
GS409223
LABEL: DE lncRNA from human NAc associated with AD vs control (p<0.10)_logFCDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier III
Human
2726 Genes
GS409224
LABEL: DE PCG from human NAc associated with AD vs control (p<0.10)_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier III
Human
2726 Genes
GS409225
LABEL: DE PCG from human NAc associated with AD vs control (p<0.10)_logFCDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes. p<0.10
Tier III
Human
22003 Genes
GS409230
LABEL: DE lncRNA from human NAc associated with AD vs control_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier III
Human
22003 Genes
GS409232
LABEL: DE lncRNA from human NAc associated with AD vs control_logFCDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier III
Human
427 Genes
GS409233
LABEL: DE pseudogenes from human NAc associated with AD vs control_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier III
Human
427 Genes
GS409234
LABEL: DE pseudogenes from human NAc associated with AD vs control_logFCDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier III
Human
13525 Genes
GS409235
LABEL: DE PCG from human NAc associated with AD vs control_pvalueDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier III
Human
13525 Genes
GS409236
LABEL: DE PCG from human NAc associated with AD vs control_logFCDESCRIPTION: At the single gene expression analysis (p ≤ 0.10), we identified a total of 6,469 probes differentially expressed between alcohol dependency (AD) cases and controls, representing 3,645 long non-coding (lncRNA) and 2,725 protein-coding genes (PCG) that compromise 5.9% and 4.4% of the total gene pool assayed, respectively. Among the differentially expressed genes, we also identified 99 pseudogenes.
Tier III
Human
6 Genes
GS409287
LABEL: PCG eQTL associations in subjects with AD, FDR p<0.10DESCRIPTION: LncRNA and protein-coding gene (PCG) expressions in the NAc from 41 subjects with alcohol dependence (AD) and 41 controls were assessed via a regression model. Weighted gene coexpression network analysis was used to identify lncRNA and PCG networks (i.e., modules) significantly correlated with AD. Within the significant modules, key network genes (i.e., hubs) were also identified. The lncRNA and PCG hubs were correlated via Pearson correlations to elucidate the potential biological functions of lncRNA. The lncRNA and PCG hubs were further integrated with GWAS data to identify expression quantitative trait loci (eQTL). Integration of hubs with genotype data identified 243 eQTLs affecting the expression of 39 and 204 PCG and lncRNA hubs, respectively. Data shown here are PCG hubs that were associated with/ affected by eQTLs at FDR p<0.10.
Tier III
Human
35 Genes
GS409288
LABEL: lncRNA eQTL associations in subjects with AD, FDR p<0.10DESCRIPTION: LncRNA and protein-coding gene (PCG) expressions in the NAc from 41 subjects with alcohol dependence (AD) and 41 controls were assessed via a regression model. Weighted gene coexpression network analysis was used to identify lncRNA and PCG networks (i.e., modules) significantly correlated with AD. Within the significant modules, key network genes (i.e., hubs) were also identified. The lncRNA and PCG hubs were correlated via Pearson correlations to elucidate the potential biological functions of lncRNA. The lncRNA and PCG hubs were further integrated with GWAS data to identify expression quantitative trait loci (eQTL). Integration of hubs with genotype data identified 243 eQTLs affecting the expression of 39 and 204 PCG and lncRNA hubs, respectively. Data shown here are lncRNA hub "genes" that were associated with/ affected by eQTLs at FDR p<0.10.
Tier III
Human
9 Genes
GS409289
LABEL: PCG NAc eQTL associations sig. SNP x AD interaction in cases vs. controls, FDR p<0.10DESCRIPTION: LncRNA and protein-coding gene (PCG) expressions in the NAc from 41 subjects with alcohol dependence (AD) and 41 controls were assessed via a regression model. Weighted gene coexpression network analysis was used to identify lncRNA and PCG networks (i.e., modules) significantly correlated with AD. Within the significant modules, key network genes (i.e., hubs) were also identified. The lncRNA and PCG hubs were correlated via Pearson correlations to elucidate the potential biological functions of lncRNA. The lncRNA and PCG hubs were further integrated with GWAS data to identify expression quantitative trait loci (eQTL). A significant genotype/disease interaction for a SNP/gene pair indicates that the effect of genotype on expression is significantly different in AD cases versus controls. At FDR of 10%, we identified 93 eQTL with significant (SNP × AD) interaction terms that mediate the expression of 24 PCG hubs and 69 lncRNA hubs. The most significantly interacting PCG eQTL was between FK506 binding protein 51 (FKBP5) and rs2766532 (Fig. 6 A,B), whereas the most significantly interacting lncRNA eQTL was between G006838 and rs12142153 (Fig. 7 A,B). Data shown here are PCG hubs that were associated with/ affected by eQTLs at FDR p<0.10 that had a significant interaction between SNP and AD status (Table S10A,B).
Tier III
Human
33 Genes
GS409290
LABEL: lncRNA NAc eQTL associations sig. SNP x AD interaction in cases vs. controls, FDR p<0.10DESCRIPTION: LncRNA and protein-coding gene (PCG) expressions in the NAc from 41 subjects with alcohol dependence (AD) and 41 controls were assessed via a regression model. Weighted gene coexpression network analysis was used to identify lncRNA and PCG networks (i.e., modules) significantly correlated with AD. Within the significant modules, key network genes (i.e., hubs) were also identified. The lncRNA and PCG hubs were correlated via Pearson correlations to elucidate the potential biological functions of lncRNA. The lncRNA and PCG hubs were further integrated with GWAS data to identify expression quantitative trait loci (eQTL). A significant genotype/disease interaction for a SNP/gene pair indicates that the effect of genotype on expression is significantly different in AD cases versus controls. At FDR of 10%, we identified 93 eQTL with significant (SNP × AD) interaction terms that mediate the expression of 24 PCG hubs and 69 lncRNA hubs. The most significantly interacting PCG eQTL was between FK506 binding protein 51 (FKBP5) and rs2766532 (Fig. 6 A,B), whereas the most significantly interacting lncRNA eQTL was between G006838 and rs12142153 (Fig. 7 A,B). Data shown here are lncRNA hub "genes" that were associated with/ affected by eQTLs at FDR p<0.10 that had a significant interaction between SNP and AD status (Table S10A,B).
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