Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

IlCarAlce

ABSTRACT: Carcharodus alceae (mallow skipper), genomic and transcriptomic data

PROVIDER: PRJEB78793 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR13494000_1.fastq.gz	Fastqsanger.gz
	ERR13494000_2.fastq.gz	Fastqsanger.gz
	ERR13485743.fastq.gz	Fastqsanger.gz

Items per page:

1 - 3 of 3

Similar Datasets

ilCarAlce

Project description:Carcharodus alceae (mallow skipper)

| PRJEB78794 | ENA

ilCarAlce1 hap1

Project description:Carcharodus alceae (mallow skipper) genome assembly, ilCarAlce1 haplotype 1

| PRJEB79750 | ENA

ilCarAlce1 hap2

Project description:Carcharodus alceae (mallow skipper) genome assembly, ilCarAlce1 haplotype 2

| PRJEB79751 | ENA

Carcharodus alceae

Project description:Carcharodus alceae overview

| PRJNA1158926 | ENA

ilPlaSubc

Project description:Platyedra subcinerea (mallow crest), genomic and transcriptomic data

| PRJEB81181 | ENA

ilLarClav

Project description:Larentia clavaria (the Mallow), genomic and transcriptomic data

| PRJEB83480 | ENA

Skipper analysis of RNA-protein interactions highlights depletion of genetic variation in translation factor binding sites

Project description:Technology for crosslinking and immunoprecipitation followed by sequencing (CLIP-seq) has identified the transcriptomic targets of hundreds of RNA-binding proteins in cells. To improve the power of existing and future CLIP-seq datasets, we introduce Skipper, an end-to-end workflow that converts unprocessed reads into annotated binding sites using an improved statistical framework. Compared to existing methods, Skipper on average calls 3.1-4.2 times more transcriptomic binding sites and sometimes >10 times more sites, providing deeper insight into post-transcriptional gene regulation. Skipper also calls binding to annotated repetitive elements and identifies bound elements for 99% of enhanced CLIP experiments. We perform nine translation factor enhanced CLIPs and apply Skipper to learn determinants of translation factor occupancy including transcript region, sequence, and subcellular localization. Furthermore, we observe depletion of genetic variation in occupied sites and nominate transcripts subject to selective constraint because of translation factor occupancy. Skipper offers fast, easy, customizable analysis of CLIP-seq data.

2022-10-08 | GSE213867 | GEO

icPodFusc

Project description:Podagrica fuscicornis (mallow flea beetle), genomic and transcriptomic data

| PRJEB78663 | ENA

ilPyrMalv

Project description:Pyrgus malvae (grizzled skipper), genomic and transcriptomic data

| PRJEB45654 | ENA

ilPyrCarl

Project description:Pyrgus carlinae (Carlinae skipper), genomic and transcriptomic data

| PRJEB80573 | ENA