|
| Status |
Public on Jul 21, 2017 |
| Title |
hMGEOs day 30 rep2 [version 1] |
| Sample type |
SRA |
| |
|
| Source name |
human MGE organoids
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: MGE organoids
status: differentiated
reagent version: version 1
|
| Growth protocol |
ESCs were cultured on Matrigel coated cell culture dish with mTeSR1 media. hMGEOs and hCOs were cultured in each established condition.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Chromium™ Single Cell 3’ Reagent Kits v1 and v2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
Gene expression in hMGEO
|
| Data processing |
Illumina Casava1.8 software used for basecalling.
Reads were aligned to hg19 human genome by Cellranger (v1.3.0).
Raw count matrix was merged by CellrangerRkit (v1.1.0) and and formatted by writeMM function in Matrix (v1.2-10)
Genome_build: hg19
Supplementary_files_format_and_content: Raw count matrix was formatted by mtx, and barcode and gene information was with tsv format.
|
| |
|
| Submission date |
Jun 26, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Yangfei Xiang |
| E-mail(s) |
yangfei.xiang@yale.edu
|
| Phone |
2037375173
|
| Organization name |
Yale University
|
| Department |
Genetics
|
| Lab |
Yale Stem Cell Center
|
| Street address |
10 Amistad St. Room 214J
|
| City |
New Haven |
| State/province |
CT |
| ZIP/Postal code |
06511 |
| Country |
USA |
| |
|
| Platform ID |
GPL20301 |
| Series (2) |
| GSE97882 |
Medial Ganglionic Eminence and Cortical Organoids Model Human Brain Development and Interneuron Migration |
| GSE98201 |
Medial Ganglionic Eminence and Cortical Organoids Model Human Brain Development and Interneuron Migration [RNA-seq2] |
|
| Relations |
| BioSample |
SAMN07278721 |
| SRA |
SRX2957345 |
