|
| Status |
Public on Dec 25, 2018 |
| Title |
KO-1 Adenoma |
| Sample type |
SRA |
| |
|
| Source name |
Adenoma
|
| Organism |
Mus musculus |
| Characteristics |
genotype: ApcMin/+; AP4deltaIEC
strain: C57BL/6
age: 16 weeks
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Adenomas were isolated from small intestine, flash frozen into liquid nitrogen, and RNA was harvested using RNeasy Mini Kit (Qiagen). 1 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
alignment: CLC Genomics Workbench (QIAGEN) using default settings
expression levels: CLC Genomics Workbench (QIAGEN) using default settings
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include normalized read counts (RPKM) for each gene
|
| |
|
| Submission date |
May 30, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Markus Kaller |
| E-mail(s) |
markus.kaller@med.uni-muenchen.de
|
| Phone |
0049-89-2180-73732
|
| Organization name |
Ludwig-Maximilians-University Munich
|
| Department |
Institute of Pathology
|
| Lab |
Experimental and Molecular Pathology
|
| Street address |
Thalkirchner Strasse 36
|
| City |
Munich |
| ZIP/Postal code |
80337 |
| Country |
Germany |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE99437 |
AP4 regulates stem and Paneth cell homeostasis and promotes adenoma initiation in the intestine (adenoma) |
|
| Relations |
| BioSample |
SAMN07177418 |
| SRA |
SRX2869208 |
