ChIP-Atlas: SRX7416563

Antigen

Cell type Class: Blood
Cell type: Bone Marrow Cells
MeSH Description: Cells contained in the bone marrow including fat cells (see ADIPOCYTES); STROMAL CELLS; MEGAKARYOCYTES; and the immediate precursors of most blood cells.

source_name: Bone marrow
strain: C57BL/6
cell type: Bone marrow derived mixed-gating strategy
genotype: Wild-type
cdna synthesis: 10x Genomics single cell 3’ v2 assay protocol
library prep: Chromium Single Cell ATAC Reagent Kits User Guide (v1 Chemistry)
sequencing parameters: 493 million reads

library_strategy: ATAC-seq
library_source: GENOMIC
library_selection: other
library_construction_protocol: Bone marrow was extracted by crushing hindlimbs isolated from mice immediately following euthanasia. The following bone marrow cell populations were FACS-sorted: proNeu-2 (Live Modified Lin- CD34+ CD16/32+ CD117+ Vcam1+), preNeu-1 (Live Modified Lin- CD34+ CD16/32+ CD117+ Ly6c+ CD11b- CD115- Vcam1+), preNeu-2 & preNeu-3 (Live Modified Lin- CD34+ CD16/32+ CD117+ Ly6c+ CD11b+ CD115- Ly6g dim-mid),), immNeu (Live Modified Lin- CD34+ CD16/32+ CD117+ Ly6c+ CD11b+ CD115- Ly6g high), and Modified GMP (Live Modified Lin- CD34+ CD16/32+). See https://support.10xgenomics.com/single-cell-atac for additional details. Cells were processed according to 'Demonstrated Protocol – Nuclei Isolation for Single Cell ATAC Sequencing, CG000169 Rev B). Isolated nuclei (12,000-20,000) were captured with a Chromium Controller Instrument (10x Genomics) using the Chromium Next GEM Single Cell ATAC Library & Gel Bead Kit according to the manufacturer's instructions. Nuclei from two independent Gfi1-wild-type animals were loaded onto two separate ports of the same 10x Genomics Chromium chip and sequenced to a combined target depth of ~1 billion reads. Nuclei from a single Gfi1-R412X-R412X animal was laoded onto a port on the 10x Genomics Chromium chip.