Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Caenorhabditis elegans

ABSTRACT: Extensive oscillatory gene expression during C. elegans larval development [RNA-seq for polyA enriched mRNAs]

PROVIDER: PRJNA230374 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR1041160.fastq.gz	Fastqsanger.gz
	SRR1041170.fastq.gz	Fastqsanger.gz
	SRR1041180.fastq.gz	Fastqsanger.gz
	SRR1041190.fastq.gz	Fastqsanger.gz
	SRR1041200.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 54

Similar Datasets

Caenorhabditis elegans

Project description:Extensive oscillatory gene expression during C. elegans larval development [Ribosome footprinting]

| PRJNA230441 | ENA

Project description:Extensive oscillatory gene expression during C. elegans larval development

| PRJNA230439 | ENA

Proteomic characterisation of Caenorhabditis elegans larval development

Project description:The nematode Caenorhabditis elegans (C. elegans) is often used as a model organism to study cell and developmental biology. Quantitative mass spectrometry has only recently been performed in C. elegans and, so far, most studies have been done on adult worm samples. Here we use quantitative mass spectrometry to characterise protein level changes across the four larval developmental stages (L1-L4) of C. elegans, in biological triplicate. In total, we identify 4,130 proteins and quantify 1,541 proteins that were identified across all four stages in all three biological repeats with at least 2 unique peptides per protein. Using hierarchical clustering and functional ontological analyses, we identify 21 protein groups containing proteins with similar protein profiles across the four stages, and highlight the most overrepresented biological functions in each of these protein clusters. In addition, we use the dataset to identify putative larval stage specific proteins in each individual developmental stage, as well as in the early and late developmental stages. In summary, this dataset provides a system-wide analysis of protein level changes across the four C. elegans larval developmental stages, which serves as a useful resource for the worm development research community.

2017-12-04 | PXD006676 | Pride

Caenorhabditis elegans

Project description:RNA-seq analysis in C. elegans larval development and heat shock

| PRJNA321853 | ENA

Caenorhabditis elegans

Project description:RNA-seq analysis of hsf-1 mutant in C. elegans larval development

| PRJNA321851 | ENA

Rhythmic transcription drives mRNA level oscillations during C. elegans development [ChIP-Seq]

Project description:Thousands of transcripts accumulate in an oscillatory manner during C. elegans larval development. Here, we confirmed these oscillations to result from rhythmic RNA polymerase II (RNAPII) binding to these oscillating genes by performing RNAPII ChIP-seq and total RNA-seq on the same samples (see related submission)

2022-12-31 | GSE169641 | GEO

Pre-mRNA splicing function of the ubiquitin-like protein Hub1/UBL-5 in Caenorhabditis elegans

Project description:The conserved ubiquitin-like protein Hub1/UBL-5 associates with proteins non-covalently. In yeast and human cells, Hub1 promotes splicing of precursor mRNAs with weak introns and alternative splicing, however, its splicing function has remained elusive in multicellular organisms. We demonstrate the splicing function of Hub1/UBL-5 in the free-living nematode Caenorhabditis elegans. UBL-5 binds to the HIND-containing splicing factors Snu66/SART-1 and PRP-38 and associates with other spliceosomal proteins. Caenorhabditis elegans hub1/ubl-5 mutants die at the larval L3 stage, and show accumulation of intron- and outron-containing transcripts. The latter observation adds to UBL-5’s splicing function in trans-RNA splicing. UBL-5 complements splicing defects of hub1-knockout Schizosaccharomyces pombe, confirming its functional conservation. Thus, UBL-5 is important for C. elegans development and cis- and trans-RNA splicing.

2024-05-21 | PXD033914 | Pride

Rhythmic transcription drives mRNA level oscillations during C. elegans development [RNA-Seq]

Project description:Thousands of transcripts accumulate in an oscillatory manner during C. elegans larval development. Here, we performed total RNA sequencing to confirm and quantify transcript levels oscillations on samples that we used in parallel to probe rhythmic RNA polymerase II recruitment to these genes as a mechanism to generate RNA level oscillations (see parallel submission of ChIP-seq data)

2022-12-31 | GSE169640 | GEO

Caenorhabditis elegans

Project description:C. elegans polyA selected RNA-seq raw sequencing reads

| PRJNA328819 | ENA

Caenorhabditis elegans

Project description:ChIP-seq of HSF-1 and Pol II in C. elegans larval development and heat shock

| PRJNA321852 | ENA