Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Systematic and single cell analysis of Xenopus Piwi-interacting RNAs and Xiwi

ABSTRACT: Various small RNA libraries from purified microtubules or Xiwi immunoprecipitates or total extract from X.tropicalis or X.laevis egg extract. Various small RNA libraries from single X.tropicalis eggs. Analysis of this series of files is described in the manuscript "Systematic and single cell analysis of Xenopus Piwi-interacting RNAs and Xiwi".

ORGANISM(S): Xenopus tropicalis Xenopus laevis

PROVIDER: GSE15556 | GEO | 2009/09/01

SECONDARY ACCESSION(S): PRJNA116003

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Systematic and single cell analysis of Xenopus Piwi-interacting RNAs and Xiwi

Project description:Various small RNA libraries from purified microtubules or Xiwi immunoprecipitates or total extract from X.tropicalis or X.laevis egg extract. Various small RNA libraries from single X.tropicalis eggs. Analysis of this series of files is described in the manuscript "Systematic and single cell analysis of Xenopus Piwi-interacting RNAs and Xiwi". Small RNAs were ligated with linkers and converted to cDNA by reverse transcription. cDNA library was amplified by PCR and was sequenced with either the 454 Genome Sequencer FLX platform or the Illumina GA-II platform.

2009-08-31 | E-GEOD-15556 | biostudies-arrayexpress

Xenopus Piwi protein associated transcripts indicate regulation beyond transposons

2015-11-10 | GSE63228 | GEO

Tdrd1 acts as a molecular scaffold for Piwi proteins and piRNA targets in zebrafish.

Project description:RNA libraries from immunoprecipitates of Tdrd1, Ziwi and Zili, total testis RNA, total RNA from 3 week old wild-type and tdrd1 mutant gonads.

2011-08-31 | GSE29418 | GEO

Xenopus Piwi protein associated transcripts indicate regulation beyond transposons

Project description:This study examines the population of transcripts associated with the Xenopus Piwi proteins, Xiwi and Xili, from X.laevis and X.tropicalis. RIP-seq, CLIP-seq, piRNA-seq, and mRNA-seq datasets were integrated to determine how the Xenopus Piwi proteins where using piRNAs and binding interactions to associate with transcripts in gonadal cells. We performed several replicates of a Piw CLIP-Seq experiment to isolate RNA fragments as CLIP-tags to discover which transcripts are preferentially bound by the Piwi protein. Then we performed several types of mRNA expression profiling experiments using several forms of mRNA-Seq library construction formats. Finally, we sequenced the piRNAs from the OSS cells

2015-11-10 | E-GEOD-63228 | biostudies-arrayexpress

Systematic and single cell analysis of Xenopus Piwi-interacting RNAs and Xiwi.

Project description: Not available

| S-EPMC2760114 | biostudies-literature

Tdrd1 acts as a molecular scaffold for Piwi proteins and piRNA targets in zebrafish.

Project description:RNA libraries from immunoprecipitates of Tdrd1, Ziwi and Zili, total testis RNA, total RNA from 3 week old wild-type and tdrd1 mutant gonads. Both size selected and non-size selected libraries were made. Sequencing was performed using Illumina platform.

2011-08-31 | E-GEOD-29418 | biostudies-arrayexpress

Localization profiling of mRNAs associated with microtubules and microtubule bound polysomes in human HeLa cells and unfertilized Xenopus eggs demonstrates conserved localization of mRNAs to mitotic microtubules

Project description:Microtubules were purified from mitotic Xenopus or Hela extracts and associated mRNAs were compared to total extract.

2007-12-31 | E-MEXP-1320 | biostudies-arrayexpress

Xenopus laevis

Project description:Gene expression profile for X.laevis embryo head vs.tail

| PRJNA153875 | ENA

Single-base resolution methylomes of Xenopus laevis x Xenopus tropicalis embryos

Project description:Genome duplication has played a pivotal role in the evolution of many eukaryotic lineages, including the vertebrates. The most recent vertebrate genome duplication is that in Xenopus laevis, which resulted from the hybridization of two closely related species about 17 million years ago. Here we generated epigenetic profiles and determined gene expression in X.laevis embryos to study the consequences of this duplication at the level of the genome, the epigenome, and gene expression.

2017-09-28 | GSE90898 | GEO

[E-MTAB-369] Transcription profiling by array of Xenopus laevis embryos at 15 different stages

Project description:Transcription profiling of X.laevis development. The experiment were perfomed as a part of our Vertebrate Evo-Devo project. The aim of the project is to compare transcription profiles of normal (unmanipulated, wild-type, whole embryo) vertebrate embryos.

2011-04-05 | GSE28390 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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