ChIP-Atlas: SRX1758542

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: Input DNA from Mx1-Cre; Dpy30F/- Lineage negative bone marrow cells
tissue: pooled bone marrow from 2 mice and lineage depleted
cell type: Lineage negative bone marrow cells
genotype/variation: Mx1-Cre; Dpy30F/-
harvest time: 10 days after the initial pIpC injection
chip antibody: none

library_strategy: ChIP-Seq
library_source: GENOMIC
library_selection: ChIP
library_construction_protocol: For samples 1-8, total RNAs were isolated using RNeasy Plus Mini (for non-HSCs) or Micro (for HSCs) Kit (Qiagen). For samples 9-14, standard ChIP assays was performed. For samples 1-8, Two rounds of polyA+ selection was performed, followed by conversion to cDNAs. Due to the very low amounts, RNAs from the donor-derived LT-HSCs were amplified using Ovation RNA-seq System V2 (Nugen) before library preparation. No amplification was performed for RNAs from non-HSCs. We used the mRNA library generation kits per manufacturer’s instructions (Agilent, Santa Clara, CA). The indexed cDNA libraries were quantitated using qPCR in a Roche LightCycler 480 with the Kapa Biosystems kit for library quantitation (Kapa Biosystems, Woburn, MA) prior to cluster generation. For samples 9-14, input and ChIP DNAs were used to construct libraries for sequencing following Illumina’s standard protocol.