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

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

Expression data from hippocampus of Phf8 knock out and wild type mice

Project description:We used microarrays to detail the global programme gene expression of Phf8 knock out and wild type mice Different expression profile were compared between Phf8 knock out and wild type mice

2018-02-23 | GSE107210 | GEO

Gene expression in wild type and mENT1 knock out mice

Project description:To investigate the functional importance of a nucleoside transporter, the mENT1 (Slc29a1) was knocked out in mice. The gene expression profile was compared between wildtype and mENT1 knock out mice in two tissues.

2011-04-27 | GSE22565 | GEO

Expression data from Adam17 knock out mice and wild type

Project description:Adam17, a shedding protease, is strongly upregtulated during inflammation and cancer. Here we investigate the genome wide effects of Adam17 knock out on the transcriptome.

2010-06-18 | GSE21691 | GEO

Gene expression of E. coli MG1655 wild type and rpoS knock-out strains

Project description:The role of rpoS gene in the formation of Escherichia coli biofilms were investigated. The gene expression was compared among E. coli MG1655 wild type strain and rpoS knock-out strain in the biofilms, the planktonic exponential phase, and the planktonic stationary phase. The analysis revealed that the wild type bilfilms (WBF) showed similar pattern of gene expression with the WT planktonic stationary phase (WS), whereas the rpoS knock-out biofilms (MBF) showed similar pattern of gene expression with the wild type planktonic exponential phase (WE). Genes involved in the energy metabolism and the flagella synthesis showed higher expression in the rpoS knock-out biofilms (MBF), but not in the wild type biofilms (WBF). Moreover, genes involved in the stress responses showed higher expression in the wild type biofilms (WBF), but not in the rpoS knock-out biofilms (MBF). Keywords: cell type comparison (biofilms vs planktonic cells, wild type vs rpoS knock-out strains)

2008-05-23 | GSE7885 | GEO

Expression data from Adam10 knock out mice and wild type

Project description:Adam10, a cell surface protease, cleaving many proteins including TNF-alpha and E-cadherin. Here we investigate the genome wide effects of Adam10 knock out on the transcriptome. Commercial microarrays (Affymetrix Mouse Gene ST 1.0) were used to generate genome wide mRNA profiles.

2011-01-06 | GSE25480 | GEO

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

Transcriptional profiling of an HtrA proteases knock-out compared to wild type

Project description:Transcriptional profiling of an HtrA proteases knock-out compared to wild type on two different time points; logarithmic growth phase and stationary growth phase

2014-08-02 | GSE55926 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data