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Upper cortical layer-driven network impairment in schizophrenia - 10x genomics v3 snRNA-seq and Visium spatial transcriptomics datasets

This dataset contains 10x Genomics v3 3’ single nuclei RNA sequencing (24 human schizophrenia and control samples) and 10x Genomics Visium spatial transcriptomics (14 human schizophrenia and control samples) datasets. Files are in .bam format, output of the cellranger v3.1.0 ( for snRNA-seq and spaceranger v1.1.0 ( for Visium samples. Reads were mapped against Release 97 of human genome from Ensembl ( More details on sample processing are available in the biorXiv pre-print ( and upcoming publication in Science Advances. BAM files can be converted to fastq files using bamtofastq tool ( with downstream remapping using tools and genomes of choice.

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Data access and use policy for schizophrenia and control cases sequencing data

Data distributed in this repository can be downloaded upon getting permission from DAC Data can be re-analyzed Data can be used in other scientific publications or for commercial use, but original study should be referenced (bioRxiv pre-print; and upcoming publication that will be mentioned on bioRxiv pre-print when paper gets published) Contact DAC for DAA

Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID Study Title Study Type
EGAS00001006495 Other
ID File Type Size Located in
EGAF00006772270 bam 40.1 GB
EGAF00006772271 bam 39.0 GB
EGAF00006772272 bam 40.6 GB
EGAF00006772273 bam 39.4 GB
EGAF00006772274 bam 43.5 GB
EGAF00006772275 bam 47.2 GB
EGAF00006772276 bam 37.0 GB
EGAF00006772277 bam 38.8 GB
EGAF00006772278 bam 47.3 GB
EGAF00006772279 bam 44.2 GB
EGAF00006772280 bam 43.2 GB
EGAF00006772281 bam 34.0 GB
EGAF00006772282 bam 42.1 GB
EGAF00006772283 bam 33.1 GB
EGAF00006772284 bam 43.6 GB
EGAF00006772285 bam 49.9 GB
EGAF00006772286 bam 26.5 GB
EGAF00006772287 bam 50.3 GB
EGAF00006772288 bam 42.6 GB
EGAF00006772289 bam 35.8 GB
EGAF00006772290 bam 35.6 GB
EGAF00006772291 bam 63.7 GB
EGAF00006772292 bam 46.4 GB
EGAF00006772293 bam 35.3 GB
EGAF00006772294 bam 6.6 GB
EGAF00006772295 bam 1.8 GB
EGAF00006772296 bam 6.9 GB
EGAF00006772297 bam 3.2 GB
EGAF00006772298 bam 6.1 GB
EGAF00006772299 bam 4.5 GB
EGAF00006772300 bam 14.6 GB
EGAF00006772301 bam 3.2 GB
EGAF00006772302 bam 7.2 GB
EGAF00006772303 bam 18.4 GB
EGAF00006772304 bam 24.6 GB
EGAF00006772305 bam 15.0 GB
EGAF00006772306 bam 5.5 GB
EGAF00006772307 bam 3.2 GB
38 Files (1.1 TB)