|
| Status |
Public on Dec 09, 2018 |
| Title |
EGLKO8 |
| Sample type |
SRA |
| |
|
| Source name |
EGL
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: cerebellum
tissue region: EGL
genotype: knockout
|
| Growth protocol |
Brain tissue was taken from SnoN conditional knockout and wild-type mice maintained under standard housing conditions.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from cerebellum of P6 mice using Trizol (Invitrogen) according to the manufacturer’s instructions. The EGL from the central lobules of P6 mice cerebellum was micro-dissected and RNA was extracted using RNeasy Plus Micro Kit with gDNA eliminator column.
After Agilent BioAnalyzer quality control, intact RNA was used for library using NEBNext Ultra RNA library preparation kit for Illumina (E7530).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Data processing |
adapter trimming using cutadapt version 1.16
sequence quality control using PRINSEQ version 0.20.4
RNA-seq reads were aligned to the GENCODE release 16 with STAR version 2.5.3a.
Gene counts were derived from the number of uniquely aligned unambiguous reads using HTSeq version 0.6.1
differentially expressed genes were identified using DESeq2
Genome_build: mm10
Supplementary_files_format_and_content: feature count tables generated using HTSeq
|
| |
|
| Submission date |
Sep 21, 2018 |
| Last update date |
Dec 09, 2018 |
| Contact name |
Guoyan Zhao |
| Organization name |
Washington University
|
| Department |
Genetics & Neurology
|
| Lab |
Guoyan Zhao
|
| Street address |
660 South Euclid Ave.
|
| City |
St. Louis |
| State/province |
MO |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL21493 |
| Series (2) |
| GSE120278 |
The Transcriptional Regulator SnoN Promotes the Proliferation of Cerebellar Granule Neuron Precursors in the Postnatal Mouse Brain |
| GSE120279 |
The Transcriptional Regulator SnoN Promotes the Proliferation of Cerebellar Granule Neuron Precursors in the Postnatal Mouse Brain |
|
| Relations |
| BioSample |
SAMN10101914 |
| SRA |
SRX4725896 |
