|
Status |
Public on Apr 30, 2013 |
Title |
Day E9.5 TGCs-RNAseq |
Sample type |
SRA |
|
|
Source name |
mouse day E9.5 implantation sites
|
Organism |
Mus musculus |
Characteristics |
strain: C57BL/6J developmental stage: E9.5 cell type: polyploid trophoblast giant cells
|
Extracted molecule |
total RNA |
Extraction protocol |
Tissues were lysed by homogenization in TRIzol reagent and RNA was prepared as indicated in the manufacture's protocol. Ten micro grams of RNA were processed with an Illumina mRNA kit to generate cDNA libraries for mRNA-sequencing according to manufacture's instructions.Thirty-six base sequencing was performed on an Illumina Genome Analyzer II (GAII) sequencer, according to Illumina’s standard protocols.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina Genome Analyzer II |
|
|
Data processing |
RNA-seq images acquired were processed by the bundled Illumina image extraction pipeline v1.6 and aligned to Mus musculus NCBI build mm9 using tophat. Gene-level quantification was performed by cufflinks using Ensembl gene models. Genome_build: mm9
|
|
|
Submission date |
Apr 04, 2013 |
Last update date |
May 15, 2019 |
Contact name |
Jessica Von Stetina |
E-mail(s) |
vstetina@wi.mit.edu
|
Organization name |
Whitehead Institute
|
Lab |
Orr-Weaver
|
Street address |
9 Cambridge Center
|
City |
Cambridge |
State/province |
MA |
ZIP/Postal code |
02142 |
Country |
USA |
|
|
Platform ID |
GPL9250 |
Series (2) |
GSE45782 |
RNA expression profiles of murine polyploid trophoblast giant cells (TGCs) from day 9.5 implantation sites. |
GSE45787 |
Murine polyploid trophoblast giant cells from day E9.5 implantation sites |
|
Relations |
SRA |
SRX260065 |
BioSample |
SAMN01999083 |