Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Neural

Cell type

Medulloblastoma

MeSH Description

A malignant neoplasm that may be classified either as a glioma or as a primitive neuroectodermal tumor of childhood (see NEUROECTODERMAL TUMOR, PRIMITIVE). The tumor occurs most frequently in the first decade of life with the most typical location being the cerebellar vermis. Histologic features include a high degree of cellularity, frequent mitotic figures, and a tendency for the cells to organize into sheets or form rosettes. Medulloblastoma have a high propensity to spread throughout the craniospinal intradural axis. (From DeVita et al., Cancer: Principles and Practice of Oncology, 5th ed, pp2060-1)

Sample

source_name

SmoM2 medulloblastoma_primary tumor

tissue

medulloblastoma

mouse genotype

CAG-CreER, Rosa26-SmoM2

antibody

none (input)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Dissociated medullblastoma cells are crosslinked, lysed and sonicated. The nuclear lysates were immunoprecipitated with anti Brg1/Brm antibodies. NEBNext ChIP-Seq Sample Prep Master Mix Set 1 was used for library generation and a Hiseq 2500 sequencer was used for sequencing at UT Southwestern Medical Center Sequencing Core Facility

Sequencing Platform

instrument_model

Illumina HiSeq 2500

mm10

Number of total reads

39698035

Reads aligned (%)

96.0

Duplicates removed (%)

16.6

Number of peaks

466 (qval < 1E-05)

mm9

Number of total reads

39698035

Reads aligned (%)

95.7

Duplicates removed (%)

16.5

Number of peaks

513 (qval < 1E-05)