| Biological Samples |
| DLPFC and HIPPO human brain dissections. |
This paper. Lieber Institute for Brain Development. The collection of human brains and dissections are described in further detail under “STAR Methods” section of the manuscript. |
Unique brain identifies (BrNum) and RNA extraction identifies (RNum) are provided in the RangedSummarizedExperiment R objects (colData slot) listed under the “Data and Software Availability” section of the manuscript. |
| Critical Commercial Assays |
| RNeasy Lipid Tissue Mini Kit for RNA extraction |
QIAGEN |
Cat#: 74804 |
| TruSeq Stranded Total RNA Library Prep Human/Mouse/Rat |
Illumina: https://www.illumina.com/products/selection-tools/rrna-depletion-selection-guide.html
|
Cat#: 20020599 |
| TruSeq Stranded Total RNA Library Prep Gold |
Illumina: https://www.illumina.com/products/selection-tools/rrna-depletion-selection-guide.html
|
Cat#: 20020597 |
| Deposited Data |
| Raw and processed data |
This paper |
http://eqtl.brainseq.org/phase2/ |
| Supplementary Figures and Tables at Mendeley Data |
This paper |
https://doi.org/10.17632/3j93ybf4md.1 |
| DLPFC RNA-seq FASTQ raw data |
This paper |
Globus collection jhpce#bsp2-dlpfc https://app.globus.org/file-manager?origin_id=0dd03924-6853-11e9-bf44-0e4a062367b8&origin_path=%2F
|
| HIPPO RNA-seq FASTQ raw data |
This paper |
Globus collection jhpce#bsp2-hippo https://app.globus.org/file-manager?origin_id=96be20a2-6853-11e9-bf44-0e4a062367b8&origin_path=%2F
|
| Software and Algorithms |
| Analysis code |
This paper |
https://github.com/LieberInstitute/brainseq_phase2 |
| Analysis code for SCZD case-control DEG analysis |
This paper |
https://github.com/LieberInstitute/qsva_brain |
| FUSION TWAS software modified for hg38 |
This paper |
https://github.com/LieberInstitute/fusion_twas |
| Guide for using performing a TWAS analysis with hg38 |
This paper |
https://github.com/LieberInstitute/brainseq_phase2/tree/master/twas |
| Other |
| BrainSeq eQTL browser |
This paper |
http://eqtl.brainseq.org/phase2/eqtl/ |
