Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

5'-end mapping of total Mycoplasma pneumoniae RNA

ABSTRACT: 5'-end mapping of total Mycoplasma pneumoniae RNA

PROVIDER: PRJEB22966 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR2167270.fastq.gz	Fastqsanger.gz
	ERR2167265.fastq.gz	Fastqsanger.gz
	ERR2167266.fastq.gz	Fastqsanger.gz
	ERR2167267.fastq.gz	Fastqsanger.gz
	ERR2167268.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

Mycoplasma Pneumoniae transcriptome along Growth Curve

Project description:To gain insight into ncRNAs functionality in bacteria, we studied the correlation of gene expression from Mycoplasma pneumoniae's ncRNAs with their overlapping ORFs over 10 different time points. This experiment contains RNAseq pair-end data from this 10 time points along Mycoplasma pneumoniae growth cycle.

2015-07-09 | E-MTAB-3076 | biostudies-arrayexpress

Phenome analysis of Mycoplasma pneumoniae

Project description:To discover new gene functions in Mycoplasma pneumoniae, cells were treated with different drugs/perturbations.

2016-04-01 | E-MTAB-3771 | biostudies-arrayexpress

Distinct patterns of metagenomic surveillance and respiratory microbiota between two P1 genotypes of Mycoplasma pneumoniae

Project description:To unravel distinct pattern of metagenomic surveillance and respiratory microbiota between Mycoplasma pneumoniae (M. pneumoniae) P1-1 and P1-2 and explore the impact of COVID-19 pandemic on epidemiological features

2024-08-07 | GSE274269 | GEO

5'-end mapping of total Mycoplasma pneumoniae RNA

Project description:The identification of promoter and upstream regulatory sequences is an key step towards understanding gene regulation; to this aim, primer extension techniques, which can be performed transcriptome-wide, are the first step, as they allow the location of experimental transcription start sites and other features (such as

2019-07-31 | E-MTAB-6124 | biostudies-arrayexpress

Transcriptome analysis of Mycoplasma pneumoniae I

Project description:To reconstruct the gene regulatory network of Mycoplasma pneumoniae, cells were treated with different drugs/perturbations or were challenged by gain or loss of function of candidate regulators, or a combination of both.

2016-04-01 | E-MTAB-3772 | biostudies-arrayexpress

Transcriptome analysis of Mycoplasma pneumoniae II

2016-04-01 | E-MTAB-3773 | biostudies-arrayexpress

Transcriptome analysis of Mycoplasma pneumoniae III

2019-07-31 | E-MTAB-4642 | biostudies-arrayexpress

Transcriptome analysis of Mycoplasma pneumoniae V

2019-07-31 | E-MTAB-6229 | biostudies-arrayexpress

Ribosome profiling of the genome-reduced bacterium Mycoplasma pneumoniae

Project description:In order to study quantitatively the translation efficiency in the genome-reduced bacterium Mycoplasma pneumoniae, we performed ribosome profiling (ribo-seq) in standard growth conditions. We first tested whether the ribosome profiling method could be applied to M. pneumoniae and assessed the quality of the obtained data. Mpn present some characteristics that differ from other model bacterial species where ribosome profiling has been established, like the absence of a cell wall, different lipid composition and low number of ribosomes (200-300 per cell compared with ~55,000 in E. coli). Thus, several aspects of the original method (Ingolia et al., 2009) had to be adapted. As a reference, we also performed ribosome profiling in E. coli. We also calibrated the ribosome P-site shift from the 3’ end of ribosome protected footprints (RPFs) by analyzing the metagene profile of a sample treated with tetracycline.

2023-07-01 | E-MTAB-11935 | biostudies-arrayexpress

Transposon sequencing to identify random insertions of lox sites in Mycoplasma pneumoniae

Project description:This dataset was used to assess the random insertion by tranposases of lox sites in Mycoplasma pneumoniae. This is part of the protocol LoxTnSeq, a new methodology to generate and catalogue libraries of genome reduction mutants. LoxTnSeq combines random integration of Lox sites by transposon mutagenesis, and the generation of mutants via cre recombinase, catalogued via deep-sequencing. When LoxTnSeq was applied to the naturally genome reduced bacterium Mycoplasma pneumoniae, we obtained a mutant pool containing 285 unique deletions. These deletions spanned from >50 bp to 28 Kb, which represent 21% of the total genome. LoxTnSeq also highlighted large regions of non-essential genes that could be removed simultaneously, and other similar regions that could not, providing a guide for future genome reductions.

2021-08-18 | E-MTAB-9590 | biostudies-arrayexpress

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