|
Status |
Public on Apr 13, 2021 |
Title |
FlatCoatedRetriever1 - PBMCs H3K4me1 |
Sample type |
SRA |
|
|
Source name |
peripheral blood mononuclear cells
|
Organism |
Canis lupus familiaris |
Characteristics |
cell type: peripheral blood mononuclear cells breed: Flat Coated Retriever antibody: H3K4me1
|
Growth protocol |
Fresh whole blood samples were collected in ACD tubes
|
Extracted molecule |
genomic DNA |
Extraction protocol |
PBMCs were isolated with FICOLL-paque plus. SimpleChIP® Plus Enzymatic Chromatin IP kit, digested chromatin was sonicated, and Abcam #ab8895 and #ab8580 antibodies were used. ChIPseq libraries were constructed using Ovation UltralowSystem V2 1-96 with 15 cycles of PCR amplification. Final libraries were twice purified with Ampure XP PCR Purification Beads (Agencourt). Pooled libraries were run with MiSeq Nano kit version 2.
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
NextSeq 550 |
|
|
Data processing |
Basecalling was performed with RTA 2.4.11 Reads were aligned with BWA-MEM and converted to BAM files using samtools 1.10 Peaks were called with MACS2 2.2.1 Genome_build: CanFam 3.1 Supplementary_files_format_and_content: peak text files
|
|
|
Submission date |
Dec 23, 2020 |
Last update date |
Apr 13, 2021 |
Contact name |
Alexander Christian Harris |
E-mail(s) |
alex.harris@nih.gov
|
Phone |
301-402-2016
|
Organization name |
National Institutes of Health
|
Department |
National Human Genome Research Institute
|
Lab |
Ostrander
|
Street address |
50 South Drive
|
City |
Bethesda |
State/province |
Maryland |
ZIP/Postal code |
20892 |
Country |
USA |
|
|
Platform ID |
GPL28490 |
Series (2) |
|
Relations |
BioSample |
SAMN17148374 |
SRA |
SRX9724957 |