Integrative analysis of the human neuronal genome, transcriptome, and more.
Sample Meta-data
| Description | Name | Size |
|---|---|---|
| A de-identified version of the sample annotations | BRAINcode.samples.attributes.txt | 6.1K |
RNA-Seq Data
| Description | Name | Size |
|---|---|---|
| Gene FPKM from cuffnorm | BRAINcode.gene.FPKM.cuffnorm.allSamples.uniq.xls.gz | 14M |
| Gene TPM converted from above FPKM (howto) | BRAINcode.gene.TPM.cuffnorm.allSamples.uniq.xls.gz | 14M |
| Gene read count | BRAINcode.gene.count.htseq.allSamples.uniq.xls.gz | 4.6M |
| TNE RPM for dopamine neuron samples | BRAINcode.TNE_SNDA.meanRPM.allSamples.xls.gz | 24M |
| TNE RPM for pyramidal neuron samples | BRAINcode.TNE_PY.meanRPM.allSamples.xls.gz | 12M |
| TNE RPM for non-neuronal samples | BRAINcode.TNE_NN.meanRPM.allSamples.xls.gz | 6.3M |
cis-eQTL Data
| Description | Name | Size |
|---|---|---|
| cis-eQTL for dopamine neuron genes (p ≤ 0.01) | BRAINcode.SNDA.gene.final.cis.eQTL.d1e6.p1e-2.tab.gz | 24M |
| Significant cis-eQTL for dopamine neuron genes (FDR ≤ 0.05) | BRAINcode.SNDA.gene.final.cis.eQTL.d1e6.p1e-2.FDRpt05.tab.gz | 72K |
| cis-eQTL for dopamine neuron TNEs (p ≤ 0.01) | BRAINcode.SNDA.TNE.final.cis.eQTL.d1e6.p1e-2.tab.gz | 46M |
| Significant cis-eQTL for dopamine neuron TNEs (FDR ≤ 0.05) | BRAINcode.SNDA.TNE.final.cis.eQTL.d1e6.p1e-2.FDRpt05.tab.gz | 116K |
Annotation
| Description | Name | Size |
|---|---|---|
| GENCODE (v19) gene annotation | gencode.v19.annotation.genes.tab.gz | 1.1M |
| eSNP annotation (incl. Illumina Omni Beadchip ID and rsID in dbSNP v144) | esnp_annotation.rds | 24.7M |
Raw data
Raw data for this project, incl. RNAseq, genotyping, and clinical data, can be downloaded via dbGaP Accession: phs001556.v1.p1