|
| Status |
Public on Jul 21, 2017 |
| Title |
hCOs day30 rep1 |
| Sample type |
SRA |
| |
|
| Source name |
human cortex organoids
|
| Organism |
Homo sapiens |
| Characteristics |
status: differentiated
cell type: hCO
day: 30
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 |
log2bcnorm_table.txt
|
| 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
processed data files format and content: Raw count matrix was formatted by mtx, and barcode and gene information was with tsv format.
|
| |
|
| Submission date |
Apr 25, 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 |
SAMN06831055 |
| SRA |
SRX2764787 |
