|
| Status |
Public on Jul 01, 2019 |
| Title |
L33_g1_cervical_s49 |
| Sample type |
SRA |
| |
|
| Source name |
cervical
|
| Organism |
Rattus norvegicus |
| Characteristics |
subject: 4
age: 18 days
tissue: PDL
region: cervical
|
| Treatment protocol |
no treatment
|
| Growth protocol |
normal growth
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Laser micro-dissection
RNA libraries were prepared for sequencing using SMARTer Ultra Low input RNA kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
rawcounts.txt
normcounts.txt
RNA-seq - 4 animals per age category (i.e. p18/p28).
|
| Data processing |
Illumina Casava2.2 software used for basecalling.
Sequenced reads were mapped to rn6 whole genome using STAR v2.5.3a with default parameters
Raw counts are produced by htseq-count (HTSeq v.0.9.1)
Normalization and differential expression analysis were performed with edgeR v.3.16.5
Genome_build: rn6
Supplementary_files_format_and_content: tab-delimited text file includes rawcount values for each Sample
Supplementary_files_format_and_content: tab-delimited text file includes normalized expression values(cpm = count per millions) for each Sample
|
| |
|
| Submission date |
Apr 08, 2019 |
| Last update date |
Jul 01, 2019 |
| Contact name |
Celine Delucinge |
| Organization name |
University of Geneva
|
| Department |
iGE3 Genomics Platform
|
| Street address |
1 rue Michel Servet
|
| City |
Geneva |
| ZIP/Postal code |
1211 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL22396 |
| Series (1) |
| GSE129458 |
Notch signaling controls periodontal ligament maturation through regulating Lamin A |
|
| Relations |
| BioSample |
SAMN11357707 |
| SRA |
SRX5652451 |
