|
| Status |
Public on Jan 16, 2020 |
| Title |
23 |
| Sample type |
SRA |
| |
|
| Source name |
placenta
|
| Organism |
Mus musculus |
| Characteristics |
tissue: placenta
treatment: BPS
gender: Female
strain: C57BL6J
developmental stage: E12.5
|
| Treatment protocol |
Female mice were fed daily a Nabisco Nilla Wafer containing either: 200ug/kg body weight BPA reconstituted in ethanol; 200ug/kg body weight BPS reconstituted in ethanol; or a wafer containing 70% ethanol (control). They were provided these wafers for two weeks prior to breeding and up until the time of placental collections.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Fetal placental tissue was microdissected at e12.5
RNA libraries were prepared for sequencing using standard Illumina protocols and the NextSeq 500 instrument
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Trimming of data using cutadapt
Alignment of data using HISAT2
Read count by HTSeq
Filtering of protein-coding genes
Calculation of transcripts per million values from raw read counts
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include Gene expression (in transcripts per million)
|
| |
|
| Submission date |
Dec 02, 2019 |
| Last update date |
Jan 16, 2020 |
| Contact name |
Geetu Tuteja |
| Organization name |
Iowa State University
|
| Department |
Genetics, Development and Cell Biology
|
| Street address |
2106 Molecular Biology Building
|
| City |
Ames |
| State/province |
IA |
| ZIP/Postal code |
50011 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE141322 |
Bisphenol A and Bisphenol S Disruptions of the Mouse Placenta and Potential Effects on the Placenta-Brain Axis |
|
| Relations |
| BioSample |
SAMN13451190 |
| SRA |
SRX7256449 |
