Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNAseq analysis of wild-type and npf8.4 under normal or 2-day N-depleted condition

ABSTRACT: RNAseq analysis of wild-type and npf8.4 under normal or 2-day N-depleted condition

PROVIDER: PRJNA930334 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR23300923_1.fastq.gz	Fastqsanger.gz
	SRR23300923_2.fastq.gz	Fastqsanger.gz
	SRR23300924_1.fastq.gz	Fastqsanger.gz
	SRR23300924_2.fastq.gz	Fastqsanger.gz
	SRR23300925_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

To compare the proteome of Stenotrophomonas maltophilia grown in normal and iron depleted condition

Project description:As an approach to identify the iron depleted responsive protein, ITRAQ approach was used to analyze the supernatant of S. maltophilia strains [clinical (CS17) and environmental (LMG959)] grown in iron depleted condition. Appendix A and B lists the up-regulated proteins identified with ≥95% confidence including their respective ratio and peptides. A total of 480 and 358 proteins were identified in replicate 1 and replicate 2 which represent two independent analysis of the experiments for both strains that met the criteria of a minimum unused score cut of >1.3 which indicates >95% confidence in correct sequence identification. Figure 4 showed that 687 proteins were detected in which 151 proteins were commonly present in replicates, 329 and 207 proteins being unique to replicate 1 and replicate 2 respectively. From 687 proteins detected, a total of 122 proteins were seen with altered expression in response to iron depleted condition among both strains. Of these, 36 proteins upregulated and 7 down-regulated in LMG959 while for CS17, 60 proteins upregulated and 19 down-regulated (Appendix A).In another comparison, CS17 and LMG959 grown in normal condition were compared. ITRAQ identified 81 differently regulated proteins with 40 proteins up-regulated and 41 proteins down-regulated in CS17 when compared to LMG959 grown in normal condition.

2020-05-26 | PXD004370 | Pride

RNAseq for mettl4 mutant in long-day condition

Project description:RNAseq for mettl4 mutant in long-day condition

| PRJNA786498 | ENA

RNAseq for atino80 mutant in long-day condition

Project description:RNAseq for atino80 mutant in long-day condition

| PRJNA631211 | ENA

RNAseq analysis of wild-type and npf8.4 under normal or 2-day N-depleted condition

Project description:Our study shows that expression of NPF8.4, as well as most photorespiration-associated genes, are up-regulated in response to 2 days of N depletion. Thus, study of NPF8.4 reveals a novel role for photorespiration in N flux to cope with short-term N depletion.

2023-03-07 | GSE224214 | GEO

Gene expression profiling in LSD1 depleted Huh-1 cell line under hypoxic condition.

2016-08-10 | GSE85345 | GEO

Transcriptome profiling of Chlorella sorokiniana under normal and stress condition

Project description:Transcriptome profiling of Chlorella sorokiniana under normal and stress condition

| PRJNA415167 | ENA

Gene expression profiling in LSD1 depleted Huh-1 cell line under hypoxic condition.

Project description:To investigate the role for LSD1 under hypoxia condition. we depleted LSD1 gene with siRNA in Huh-1 cell lines under 1% O2 hypoxia condtion, and than perforemed gene expression microarray analysis. Using Gene Set Enrichment Analysis (GSEA), determined to identify the biological pathway. Determined the gene expression profile of the LSD konckdown effect under hypoxia condition. Using Gene Set Enrichment Analysis (GSEA) decided to identify the biological pathways.

2016-08-10 | E-GEOD-85345 | biostudies-arrayexpress

The identification of VAMP8 interactive protein under normal and EBSS condition

Project description:VAMP8 was first identified as an endosomal SNARE that participates in diverse biological functions, including autophagy fusion. We investigated the protein interaction and modification of VAMP8 upon starvation condition compared with normal condition, we thus excised the GFP-VAMP8 band from the Coomassie staining gels that observed in approximately (25-55Kda) and sent the excised gels for mass spectrum analysis, and the same time, we identified the potential candidate of E3 ligase for targeting VAMP8.

2025-05-20 | PXD064129 |

Transcriptome profiling of Chlorella sorokiniana under normal and stress condition

Project description:Purpose: The purpose of this study are to identify the genes involved in regulating the production of metabolites in Chlorella sorokiniana under stress-induced condition through RNA-sequencing technique. Methods:Transcriptome profile from normal and stress sample of C. sorokiniana were generated, in triplicate, using Illumina Hiseq2000. The sequence reads that passed quality filters were de-novo assembled using Trinity doftware, followed by analysis using Burrows–Wheeler Aligner (BWA) and DESeq2. Lastly, RT-qPCR was used to validate the expression level of genes. Results: A total of 200 million reads was obtained from both normal and stress induced samples of C. sorokiniana. The assembly program produced 18,310 assembled transcripts with a length ranging from 165 to 16,695 bp. Differential expression analysis revealed 933 transcripts were significantly differentially expressed between normal and stress with 431 were up-regulated and 502 were down-regulated. Pathway analysis revealed that the differentially expressed genes were associated with a variety of KEGG pathways.

2020-10-20 | GSE105427 | GEO

miRNA transcriptome profiling of Chlorella sorokiniana and Chlorella zofingiensis under normal and stress condition

Project description:Purpose: The purpose of this study are to identify the miRNA involved in regulating the production of metabolites in Chlorella sorokiniana and Chlorella zofingiensis under normal and stress-induced condition through RNA-sequencing technique. Methods: miRNA transcriptome profile from normal and stress sample of C. sorokiniana and C. zofingiensis were generated, in triplicate, using Illumina Miseq. The sequence reads that passed quality filters were analysed using CLC genomic workbench and OmiRas. Results: The known and predicted novel miRNAs were identified. Although most of the identified miRNAs were not functionally determined, this study suggests that they were species-specific, which may have roles in regulating genes during stress related condition.

2022-10-01 | GSE107372 | 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