|
| Status |
Public on May 23, 2024 |
| Title |
2C G1 NoNoc - Sample A2 |
| Sample type |
SRA |
| |
|
| Source name |
2-Cell Embryo
|
| Organism |
Mus musculus |
| Characteristics |
tissue: 2-Cell Embryo
treatment: No Nocodazole synchronization
|
| Treatment protocol |
In Vitro Ferilized embryos were maintained in KSOM.
|
| Growth protocol |
To obtain zygotes and 2-cell stage embryos, four to eight-week-old donors were injected with 100µl of 50 I.U. ml-1 (international units) ml−1 solution) solution pregnant mare serum gonadotropin (PMSG) at 17.00 followed by injection of 100µl of 50 I.U. ml-1 human chorionic gonadotropin (hCG) at 17.00 48 hours after PMSG.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA extraction for single-cell RepliSeq was conducted following established protocols as described in a previous publication (PMID: 33230331).
Library construction was carried out using the protocols established by Miura et al., 2020 (PMID: 33230331), incorporating IDT for Illumina unique dual indexes and the KAPA Hyper Prep Kit from Roche.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
NextSeq 550 |
| |
|
| Description |
2CRS_013_G1-A2
|
| Data processing |
*library strategy: single cell RepliSeq
Raw sequencing reads were trimmed, aligned and processed according to Miura et al., 2020 (PMID: 33230331).
Data processing of trimmed abd aligned reads were processed to obtain log2 fold replication timing values according to the methodology described by Miura et al. in their publication from 2020 (PMID: 33230331).
Assembly: mm10
Supplementary files format and content: BedGraph
Supplementary files format and content: bed
|
| |
|
| Submission date |
Feb 14, 2024 |
| Last update date |
May 23, 2024 |
| Contact name |
Jason A Halliwell |
| E-mail(s) |
jhalliwell@sund.ku.dk
|
| Organization name |
The University of Copenhagen
|
| Street address |
Blegdamsvej 3B
|
| City |
København |
| ZIP/Postal code |
2200 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL21626 |
| Series (1) |
| GSE237400 |
The establishment of a DNA replication timing program in the early embryo. |
|
| Relations |
| BioSample |
SAMN39944876 |
| SRA |
SRX23621794 |
