|
| Status |
Public on Oct 15, 2018 |
| Title |
H3K79me2, ChIPseq, Mus Musculus CGN SGC0946, biological replicate 2 |
| Sample type |
SRA |
| |
|
| Source name |
cerebellum, granular neurons
|
| Organism |
Mus musculus |
| Characteristics |
antibody: H3K79me2
agent: CGN SGC0946
strain: NMRI
developmental stage: P7, DIV2
genotype: Wildtype
|
| Treatment protocol |
CGNP (+SHH) DIV1, 4 h or CGN (+FBS) DIV2, 44 h after DOT1L inhibition with SGC0946; each compared to DMSO control. Cells derived from murine cerebellum of P7 NMRI WT mice
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Roidl et al, Stem Cells. 2016 Jan;34(1):233-45. doi: 10.1002/stem.2187.
1 - NEBNext® Ultra DNA Library Prep Kit for Illumina® Minus Size Selection (E7370S/L)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
24c_CGN_DOT1Linh_H3K79me2
|
| Data processing |
Sequencer: HiSeq2500, 2 lanes, 200 M reads per lane, read length: 50bp paired end, multiplexing run
Raw data processed with Illumina bcl2fastq2 v1.8.4 to fastq files
Reads were directly mapped with Bowtie2 v2.2.0 without trimming
Picard MarkDuplicates v1.136.0 was used to remove read duplicates before peak calling with MACS2 broad peak v2.1.0 and DiffBind v2.1.0
Genome_build: UCSC mm10
Supplementary_files_format_and_content: bigwig
|
| |
|
| Submission date |
Jul 27, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Patrick Piero Bovio |
| Organization name |
Albert-Ludwigs University Freiburg, Institute of Anatomy and Cell Biology
|
| Department |
Department of Molecular Embryology
|
| Lab |
Vogel
|
| Street address |
Albertstr. 19
|
| City |
Freiburg |
| ZIP/Postal code |
79104 |
| Country |
Germany |
| |
|
| Platform ID |
GPL17021 |
| Series (2) |
| GSE101947 |
H3K79me2 ChIP-seq in cerebellar granular neurons (CGN) and progenitors (CGNP) upon DOT1L inhibition with SGC0946 in vitro |
| GSE101949 |
Cerebellar granular neurons (CGN) and progenitors (CGNP) upon DOT1L inhibition or cKO |
|
| Relations |
| BioSample |
SAMN07418936 |
| SRA |
SRX3041977 |
