Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome Analysis of Wild Type and HMGB1 knock-out iSLK BAC16 cells

ABSTRACT: Transcriptome Analysis of Wild Type and HMGB1 knock-out iSLK BAC16 cells

PROVIDER: PRJNA660741 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR12564261_1.fastq.gz	Fastqsanger.gz
	SRR12564261_2.fastq.gz	Fastqsanger.gz
	SRR12564262_1.fastq.gz	Fastqsanger.gz
	SRR12564262_2.fastq.gz	Fastqsanger.gz
	SRR12564263_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 8

Similar Datasets

Transcriptome Analysis of HMGB1 knock-out iSLK BAC16 cell (2)

Project description:Transcriptome Analysis of HMGB1 knock-out iSLK BAC16 cell (2)

| PRJNA722735 | ENA

Transcriptome Analysis of HMGB1 knock-out iSLK BAC16 cell (2)

Project description:Purpose: RNA sequencing (RNA-seq) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived transcriptome profiling (RNA-seq) to microarray and quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods and to evaluate protocols for optimal high-throughput data analysis. In addition, we have already registered the transcriptome analysis results of HMGB1 KO iSLK BAC16 cell in GSE157275, and this registration is to reproduce it.

2021-04-19 | GSE172275 | GEO

ac4C-seq of cellular and KSHV transcripts in iSLK-Puro, iSLK-KSHV (i.e. iSLK-RGB), iSLK-KSHV (WT), iSLK-KSHV (ΔNAT10) cells

Project description:We used ac4C-seq to detedc cellular and KSHV transcripts in iSLK-Puro, iSLK-KSHV, iSLK-KSHV (WT), iSLK-KSHV (ΔNAT10) cells after after doxycycline and sodium butyrate treatment.

2023-09-27 | GSE174161 | GEO

Transcriptome Analysis of Wild Type and HMGB1 knock-out iSLK BAC16 cells

2020-09-02 | GSE157275 | GEO

wild-type and MORC2 knock-out HEK293T cells

Project description:wild-type and MORC2 knock-out HEK293T cells

| PRJNA1148452 | ENA

HMGB1 contributes to mitochondrial DNA damage repair and extends lifespan in mutant ataxin-1 knock-in mice

Project description:Mutant ataxin-1 (Atxn1), which causes spinocerebellar ataxia type 1 (SCA1), binds to and impairs the function of high mobility group box 1 (HMGB1), a critical nuclear protein that regulates DNA architectural changes essential for DNA damage repair and transcription. In this study, we established that transgenic or virus vector-mediated supplementation of HMGB1 ameliorates motor dysfunction and elongates lifespan in mutant Atxn1 knock-in (Atxn1-KI) mice. We identified mitochondrial DNA damage repair by HMGB1 as a novel molecular basis for this effect, in addition to the mechanisms already associated with HMGB1 function, such as nuclear DNA damage repair and nuclear transcription. The dysfunction and the improvement of mitochondrial DNA damage repair functions are tightly associated with the exacerbation and rescue, respectively, of symptoms, supporting the involvement of mitochondrial DNA quality control by HMGB1 in SCA1 pathology. Moreover, we show that the rescue of Purkinje cell dendrites and dendritic spines by HMGB1 could be downstream effects. Although extracellular HMGB1 triggers inflammation mediated by toll-like receptor and receptor for advanced glycation end products, upregulation of intracellular HMGB1 does not induce such side effects. Thus, viral delivery of HMGB1 is a candidate approach by which to modify the disease progression of SCA1 even after its onset.

2015-01-05 | E-MTAB-2987 | biostudies-arrayexpress

Analyzing ceRNA networks involved in KSHV lytic replication mediated by vIRF1 or vFLIP.

Project description:Whole-transcriptome sequencing (RNA sequencing [RNA-seq]) was performed in the viral producer cell lines iSLK-RGB BAC16,iSLK-RGB-K9 mutant and iSLK-RGB-K13 mutant cells to uncover the global landscape of long non-coding RNAs (lncRNAs), circular RNAs (circRNAs), mRNAs and microRNAs (miRNAs) in KSHV replication mediated by vIRF1 or vFLIP.

2022-02-24 | GSE180921 | GEO

Microarray of wild type, Shp2 knock-out, Pten knock-out and double knock-out erythroblasts

Project description:the gene expression profiling results provide important information for the genes regulated by crosstalk between Shp2 and Pten mediated signal pathways Total RNA was extracted from CD71mid Ter119high erythroblasts isolated from the bone marrow of wide type, Shp2 knock-out, Pten knock-out and double knock-out mice

2013-07-03 | E-GEOD-48477 | biostudies-arrayexpress

Next Generation Sequencing Facilitates Quantitative Analysis of control, SETD6 Knock-out, SETD3 knock-out and SETD6+SETD3 knock-out HeLa cells Transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of control, SETD6 Knock-out, SETD3 knock-out and SETD6+SETD3 knock-out HeLa cells Transcriptomes

| PRJNA819059 | ENA

ac4C-seq of cellular and KSHV transcripts in iSLK-Puro, iSLK-KSHV (i.e. iSLK-RGB), iSLK-KSHV (WT), iSLK-KSHV (ΔNAT10) cells

Project description:ac4C-seq of cellular and KSHV transcripts in iSLK-Puro, iSLK-KSHV (i.e. iSLK-RGB), iSLK-KSHV (WT), iSLK-KSHV (ΔNAT10) cells

| PRJNA728653 | ENA