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Human gammaherpesvirus 8 strain:TREx BCBL1-RTA

ABSTRACT: Human gammaherpesvirus 8 strain:TREx BCBL1-RTA Raw sequence reads

PROVIDER: PRJNA339303 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	SRR4054666_1.fastq.gz	Fastqsanger.gz
	SRR4054666_2.fastq.gz	Fastqsanger.gz
	SRR4054667_1.fastq.gz	Fastqsanger.gz
	SRR4054667_2.fastq.gz	Fastqsanger.gz
	SRR4054668_1.fastq.gz	Fastqsanger.gz

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Next Generation Sequencing analysis of KSHV lytic replication in TREx-BCBL1-RTA cells

Project description:Purpose: miR-Seq was utilised to identify miRNAs which are altered during the course of KSHV lytic replication at 0, 16 and 24 hours post reactivation in TREx-BCBL1-RTA cells. Methods: Virus lytic replication was induced via addition of 2 µg/mL doxycycline hyclate (Sigma-Aldrich). Total RNA was extracted from TREx-BCBL-1s at 0, 16 and 24 hours post lytic induction. Small RNA libraries were prepared using the TruSeq Small RNA Library Prep Kit (Illumina). Quality filtered (Q < 20), and adapter trimmed reads (Trimmomatic v0.39) [59] were aligned to the GRCh38/hg38 assembly of the human genome using Bowtie2 (V 2.4.2).

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Next Generation Sequencing analysis of KSHV lytic replication in TREx-BCBL1-RTA cells

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m6A-RNA mapping, SND1-RNA binding profile mapping and SND1-depletion in KSHV-infected B-lymphocytes

Project description:We have mapped m6A sites and endogenous SND1 binding sites in the viral and cellular transcriptome using TREx BCBL1-Rta cells. In addition, we have depleted SND1 in TREx BCBL1-Rta cells and BCBL1 cells and analyzed their RNA expression profile both during latency and lytic replication.

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TREx-BCBL1-RTA GPRC5A-FLAG Immunoprecipitation LC-MS

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Transcription profiling of human 239T cells expressing wild type or mutant forms of gammaherpesvirus transactivator RTA

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