ChIP-Atlas: SRX1800721

Antigen

Cell type Class: Neural
Cell type: Cerebellum
MeSH Description: The part of brain that lies behind the BRAIN STEM in the posterior base of skull (CRANIAL FOSSA, POSTERIOR). It is also known as the "little brain" with convolutions similar to those of CEREBRAL CORTEX, inner white matter, and deep cerebellar nuclei. Its function is to coordinate voluntary movements, maintain balance, and learn motor skills.

library_strategy: ChIP-Seq
library_source: GENOMIC
library_selection: ChIP
library_construction_protocol: For cultured neurons, cells were fixed on plate with 1% formaldehyde, nuclei were isolated and then sonicated by bath ultrasonicator (Bioruptor). Lysates were clarified and DNA-histone complexes were isolated by either anti-H3K4me3 (Active motif 39159) or H3K27ac (Active motif 39133) immobilized by protein A dynabeads (Life). For cerebellar neurons, tissue was collected from NeuroD1 BAC-TRAP mice and snap frozen at P15. Tissue was then homogenized and fixed with 1% formaldehyde and neurons were sorted based on GFP signal. Lysates were clarified and histone-DNA complexes were isolated using Protein G dynabeads (Life) Purified DNA was prepared for sequencing with the TruSeq ChIP sample Prep Kit (Illumina) as per manufacturer's instructions. Libraries were sequenced on either HiSeq2000 (Illumina) with 50bp single reads or NextSeq500 with 75bp single reads.