|
| Status |
Public on Jun 30, 2022 |
| Title |
cyno early blastocyst 1-5 |
| Sample type |
SRA |
| |
|
| Source name |
early blastocyst
|
| Organism |
Macaca fascicularis |
| Characteristics |
sample type: early blastocyst
|
| Treatment protocol |
Single cells were washed twice with 1x PBS containing 0.1% BSA before placing in lysis buffer.
|
| Growth protocol |
Single blastomeres were isolated by removing the zona pellucida using acidic tyrode solution (Sigma, cat. no. T1788), then separated by gentle mouth pipetting in a calcium-free medium.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was isolated from single cells or single morula embryos and amplified as previously described
Library construction was performed following Illumina manufacturer suggestions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Raw reads from the Illumina HiSeq2000 were mapped to the cynomolgus genome (GCA_000364345.1 Macaca_fascicularis_5.0) using default parameters in BWA
Mapped transcripts reads were transformed using the reads per kilobase per million (RPKM) metric
Genes with low expression were filtered out, followed by quantile normalization.
Genome_build: GCA_000364345.1 (GenBank assembly accession)
Supplementary_files_format_and_content: monkey_processed_RPKM.txt: matrix listing normalized RPKM
|
| |
|
| Submission date |
Dec 21, 2015 |
| Last update date |
Jun 30, 2022 |
| Contact name |
Kevin Huang |
| Phone |
310-267-0438
|
| Organization name |
UCLA
|
| Department |
Human Genetics
|
| Lab |
Guoping Fan
|
| Street address |
Gonda BLDG Rm. 6554, P.O.Box 957088
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095-7088 |
| Country |
USA |
| |
|
| Platform ID |
GPL18648 |
| Series (1) |
| GSE75764 |
Single-cell analysis of gene networks in trophoectoderm and inner cell mass during human, monkey and mouse preimplantation development |
|
| Relations |
| BioSample |
SAMN04359597 |
| SRA |
SRX1494565 |
