|
| Status |
Public on Nov 28, 2023 |
| Title |
7_Control_Input |
| Sample type |
SRA |
| |
|
| Source name |
Mouse immature neurons
|
| Organism |
Mus musculus |
| Characteristics |
cell type: immature neurons
chip antibody: None
condition: Input
treatment: Control
|
| Treatment protocol |
These primary immature neurons were either untreated (Control), or treated with 10mM 2-DG for 6h.
|
| Growth protocol |
Primary immature neurons were cultured from E14 mouse embryos and plated on poly-D-Lysine coated plates in the EMEM plus GlutMAX medium added with 10% fetalk bovine serum, 5% horse serum, and 1% Penicillin/Streptomycin. These neurons (two days in vitro) were treated with 2-Deoxyglucose (2-DG).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Purified RNA was extracted from these samples using Nucleospin RNA kit (Macherey-Nagel) and follwing its protocol. RNA concentration determined by Nanodrop 1000 (Thermofisher scientific).
Libraries were prepared according to Illumina's instructions
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Input Control
|
| Data processing |
BWA was used for alignment
Picard was used for removing duplicates
MACS2 was used for peak calling
DiffBind for differential peak calling
Assembly: mm10
Supplementary files format and content: peaks
|
| |
|
| Submission date |
Nov 04, 2022 |
| Last update date |
Nov 28, 2023 |
| Contact name |
Riki Kawaguchi |
| Organization name |
University of California, Los Angeles
|
| Department |
Department of Psychiatry and Neurology Department of Psychiatry
|
| Lab |
AMRF Functional Genomics Common Research Resource
|
| Street address |
760 Westwood Plaza, Room 37-420
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095-1759 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE217282 |
The Intermittent Fasting Mimetic, 2-deoxyglucose, Reprograms Brain Derived Neurotrophic Factor (BDNF) transcription via an Adaptive ER Stress-ATF4 Pathway and Improves Outcomes in Alzheimer’s and Stroke Models [ChIP-seq] |
| GSE217284 |
The Intermittent Fasting Mimetic, 2-deoxyglucose, Reprograms Brain Derived Neurotrophic Factor (BDNF) transcription via an Adaptive ER Stress-ATF4 Pathway and Improves Outcomes in Alzheimer’s and Stroke Models |
|
| Relations |
| BioSample |
SAMN31608686 |
| SRA |
SRX18171664 |
