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RNA-seq of H3.3 knockout and wild type chicken DT40 cells

ABSTRACT: RNA-seq of H3.3 knockout and wild type chicken DT40 cells

PROVIDER: PRJEB6738 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR565903.fastq.gz	Fastqsanger.gz
	ERR565904.fastq.gz	Fastqsanger.gz
	ERR565905.fastq.gz	Fastqsanger.gz
	ERR565906.fastq.gz	Fastqsanger.gz
	ERR565907.fastq.gz	Fastqsanger.gz

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RNA-seq of H3.3 knockout and wild type chicken DT40 cells

Project description:RNA-seq was performed for transcriptional analysis of wild-type DT40 cells (Gallus gallus, B-cell line) and a H3.3 knockout line (h3.3a-/-, h3.3b-/-). H3.3 is a H3 histone variant encoded on two genes (H3.3A and H3.3B) in chickens.

2014-08-31 | E-MTAB-2754 | biostudies-arrayexpress

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Project description:RNA-seq of H3.3 knockout and wild type chicken DT40 cells

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Project description:A single replicate of exponentially growing DT40 CL18 chicken B lymphoma cells were harvested and extracted RNA was subjected to Illumina GAIIx paired-end sequencing to determine global gene expression.

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Project description:Effect of abrogation of the histone methyltransferase Dot1L on gene expression in the chicken DT40 model system

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Genome-wide replication fork directionality measured by strand-specific sequencing of Okazaki fragments in chicken lymphoma cells (DT40).

Project description:Genome-wide replication fork directionality measured by strand-specific sequencing of Okazaki fragments in chicken lymphoma cells (DT40).

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Comparison of gene expression between wild-type and PTIP deficient chicken DT40 B cells

Project description:PTIP (Pax2 transactivation domain-interacting protein) is a nuclear protein containing six BRCT domains. It has been shown that PTIP affects gene expression by controlling the activity of the transcription factor Pax2 and histone H3 lysine 4 methyltransferase complexes. In addition to its role in transcriptional regulation, PTIP has been implicated in DNA damage response. To ask if the depletion of PTIP affects the expression level of genes encoding DNA damage response factors , we compared the whole transcripts between wild-type and PTIP deficient chicken DT40 B cell lines. The total RNAs were isolated from wild-type and PTIP deficient cells (PTIP-/-/-) using Sepasol®-RNA I (Nacalai tesque, Japan). The gene expression profiles were examined using Genechip® Chicken Genome Array (Affymetrix Cat #900590), by GeneticLab co. Ltd. Japan, following Genechip® protocol.

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