|
| Status |
Public on Mar 20, 2006 |
| Title |
single cell from ICM E3.5, biological rep9 |
| Sample type |
RNA |
| |
|
| Source name |
Single cell from ICM in blastocyst at E3.5
|
| Organism |
Mus musculus |
| Characteristics |
Strain: C57BL/6
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Single cell was lysed by adding to the tube containing cell lysis buffer, and the clude lysate was used for cDNA synthesis and amplification without purification.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared from the PCR-amplified double-starnded cDNA according to the standard Affymetrix protocol (Affymetrix GeneChip Expression Analysis Technical Manual, 2004, Affymetrix: Eukaryotic One-Cycle Target Labeling Assay)
|
| |
|
| Hybridization protocol |
Hybridization was performed according to the standard Affymetrix protocol (Affymetrix GeneChip Expression Analysis Technical Manual, 2004, Affymetrix: Eukaryotic Target Hybridization)
|
| Scan protocol |
The microarray image data were processed with the GeneChip Scanner 3000 (Affymetrix)
|
| Description |
Gene expression data from single ICM cells (E3.5)
|
| Data processing |
CEL data were generated by GeneChip Operating Software and then subjected to the dCHIP software. Data obtained from the eight amplified samples (ES-10pg-amplified-rep1:8) were normalized together with the default settings. The Model-Based Expression Indices (MBEI) were calculated using the PM/MM difference mode with log-2 transformation of signal intensity and truncation of low values to zero.
|
| |
|
| Submission date |
Feb 27, 2006 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Kazuki Kurimoto |
| E-mail(s) |
kurimoto@naramed-u.ac.jp
|
| Organization name |
Nara Medical University
|
| Department |
School of medicine
|
| Lab |
Department of Embryology
|
| Street address |
840 Shijo-Cho, Kashihara
|
| City |
Nara |
| ZIP/Postal code |
634-8521 |
| Country |
Japan |
| |
|
| Platform ID |
GPL1261 |
| Series (2) |
| GSE4307 |
Expression data from single cells from ICMs of mouse blastocysts at E3.5 |
| GSE4309 |
An improved single-cell cDNA amplification method for efficient high-density oligonucleotide microarray analysis |
|
| Relations |
| Reanalyzed by |
GSE119085 |
