|
| Status |
Public on Apr 26, 2024 |
| Title |
R270X_pol2_rep3 |
| Sample type |
SRA |
| |
|
| Source name |
hES-neurons
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: hES-neurons
genotype: MECP2 R270X
|
| Growth protocol |
hESC- neurons were maintained in BrainPhys media supplemented with N2/B27 supplements, NT-3, GDNF, and BDNF in humidified atmosphere with 5% CO2 at 37C
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
CUT and Tag-IT kit from Active Motif.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
R270X (anti-GFP)
|
| Data processing |
Sequence reads were mapped to the hg38 reference genome using Bowtie 2 with the following options: --local --very-sensitive --no-mixed --no-discordant --phred33 -I 10 -X 700. Following the CUT&Tag analysis protocol of Zheng, Ahmad and Henikoff (https://yezhengstat.github.io/CUTTag_tutorial/), bigWig files were generated after normalization the the E. coli spike-in reads.
Assembly: hg38
Supplementary files format and content: bigWig
Library strategy: CUT&Tag
|
| |
|
| Submission date |
Nov 06, 2023 |
| Last update date |
Apr 26, 2024 |
| Contact name |
Yi Liu |
| E-mail(s) |
yiliu@wi.mit.edu
|
| Phone |
6173010107
|
| Organization name |
Whitehead Institute for Biomedical Research
|
| Lab |
Jaenisch lab
|
| Street address |
455 Main St
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02141 |
| Country |
USA |
| |
|
| Platform ID |
GPL20301 |
| Series (2) |
| GSE230716 |
MECP2 directly interacts with RNA polymerase II to modulate transcription in human neurons |
| GSE247071 |
MECP2 directly interacts with RNA polymerase II to modulate transcription in human neurons. [CUT&Tag] |
|
| Relations |
| BioSample |
SAMN38116662 |
| SRA |
SRX22380187 |
