|
| Status |
Public on Dec 11, 2017 |
| Title |
ZT20-KO-A_Kidney_RNASeq |
| Sample type |
SRA |
| |
|
| Source name |
ZT20-KO-A_Kidney
|
| Organism |
Mus musculus |
| Characteristics |
strain: 129SV
tissue: Kidney
feeding: Night-restricted feeding
age: post-natal 8-12 weeks
genotype: KO
time: ZT20
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNAs were extracted as previously described (Gachon et al, 2006) with classical methods using guanidium thiocyanate lysis buffer.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Kidney PolyA-selected RNA
RNA-Seq of Kidney extracted from KO mice at ZT20
kidneyWT_vs_kidneyKO_kallisto_abundances.txt.gz
|
| Data processing |
Genome_build: mm10
kallisto (version 0.42.4) was run using Mus musculus genome build GRCm38 reference using parameters --single -b 100 -t 20 -l 200 -s 12
Supplementary_files_format_and_content: Estimates of transcript abundance in TPM. Concatenated abundances.tsv from kallisto.
|
| |
|
| Submission date |
Jun 26, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Felix Naef |
| E-mail(s) |
[email protected]
|
| Phone |
+41 (0)21 693 16 21
|
| Organization name |
École Polytechnique Fédérale de Lausanne
|
| Department |
Bioengineering
|
| Lab |
Computational Systems Biology
|
| Street address |
AAB 040 Station 15
|
| City |
Lausanne |
| ZIP/Postal code |
1015 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE100457 |
Transcription factor activity rhythms and tissue-specific chromatin interactions explain circadian gene expression across organs |
|
| Relations |
| BioSample |
SAMN07277077 |
| SRA |
SRX2955693 |
