|
| Status |
Public on May 08, 2024 |
| Title |
SCZ_52B Astrocyte |
| Sample type |
SRA |
| |
|
| Source name |
Astrocyte induced from iPSC
|
| Organism |
Homo sapiens |
| Characteristics |
disease: schizophrenia
|
| Growth protocol |
GPCs were generated from human induced pluripotent stem cells (iPSCs) using our previously described protocol (Wang et al., 2013, Windrem et al., 2017). Cells were harvested on the basis of the expression of the bipotential GPC surface marker CD140a or the astrocytic marker CD44.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Glial cell populations where used in mRNA isolation by PolyA selection and mRNA sequencing analysis, utilizing the TruSeqRNA Library Prep Kit V2.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
RNA-seq
|
| Data processing |
The sequencing reads were pre-processed with fastq(Chen et al., 2018), aligned with STAR (Dobin et al., 2013) to the genome assembly GRCh38 (Flicek et al., 2014), and quantified with RSEM (Li and Dewey, 2011) using the ENSEMBL Homo sapiens version 95 annotation.
Genome_build: GRCh38
Supplementary_files_format_and_content: RawCounts
Supplementary_files_format_and_content: TPM
|
| |
|
| Submission date |
Nov 10, 2021 |
| Last update date |
May 08, 2024 |
| Contact name |
Steven Goldman |
| Organization name |
University of Rochester Medical Center
|
| Department |
Center for Translational Neuromedicine
|
| Lab |
Goldman Lab
|
| Street address |
601 Elmwood Ave
|
| City |
Rochester |
| State/province |
NY |
| ZIP/Postal code |
14642 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (2) |
| GSE188558 |
Shared patterns of glial transcriptional dysregulation link Huntington's disease and schizophrenia |
| GSE188561 |
Shared patterns of glial transcriptional dysregulation link Huntington's disease and schizophrenia |
|
| Relations |
| BioSample |
SAMN23036156 |
| SRA |
SRX13097542 |
