|
| Status |
Public on Jun 29, 2017 |
| Title |
2185 |
| Sample type |
SRA |
| |
|
| Source name |
hippocampus
|
| Organism |
Mus musculus |
| Characteristics |
strain: mixed C57BL and 129/SvJ background
genotype: Adnp+/-
age: 1 month
gender: male
|
| Treatment protocol |
Adnp+/- animals were produced according to publications: 1) Activity-dependent neuroprotective protein: a novel gene essential for brain formation, Pinhasov et al., Dev. Brain Res. 144:83-90 (2003); 2) Activity dependent neuriprotective protein snippet NAP reduces Tau hyperphosphorylation and enhances learning in a novel transgenic mouse model. Vulih-Shultzman et al, JPET 323:438-449 (2007); 3) Activity-dependent neuroprotective protein (ADNP) exhibits striking sexual dichotomy impacting on autistic and Alzheimer's pathologies. Transl. Psychiatry 5:e501; doi:10.1038/tp.2014.138 (2015).
|
| Growth protocol |
Mice were housed in a 12-h light/12-h dark cycle facility, and free access to rodent chow and water was available.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hippocampal RNA was extracted using TRI Reagent (T9242, Sigma-Aldrich, MO,USA) kit followed by mRNA libraries construction.
Customary Illumina TruSeq™ RNA Sample Prep Kit v2 protocol (catalog No. RS-122-2001)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Data processing was performed using partek Flow build version 4.0.15.0702
Bases were trimmied on quality score=20. Adaptors were also trimmed.
Filter BAM files with minimal mapping quality=20.
Alignment usign Bowtie2 version 2.1.0.
Quantification to transcriptome performed using Partek E/M algorithm.
Genome_build: mm9
Supplementary_files_format_and_content: raw expression values
|
| |
|
| Submission date |
Sep 02, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Metsada Pasmanik-Chor |
| E-mail(s) |
metsada@tauex.tau.ac.il
|
| Organization name |
Tel Aviv University
|
| Department |
Biology
|
| Lab |
Bioinformatics Unit
|
| Street address |
Ramat Aviv
|
| City |
Tel Aviv |
| ZIP/Postal code |
69978 |
| Country |
Israel |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE72664 |
Sexual Divergence in Microtubule Function: The Novel Intranasal Microtubule Targeting SKIP Normalizes Axonal Transport and Enhances Memory |
|
| Relations |
| BioSample |
SAMN04027384 |
| SRA |
SRX1179026 |
