Return to search results Title: Xenopus Piwi protein associated transcripts indicate regulation beyond transposons

Summary

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.

Contributors: Nelson Lau, Trey Toombs, Yuliya Sytnkova, Gungwei Chirn, Michael Blower

Experiment Type: 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

Article: XB-ART-52877, PubMed

Source: NCBI GEO, Xenbase Download

Sample	View		GSMs	Assay Type
oocyte - oocyte III-IV GSM1544074  RNA-Seq Xtr   [-] [+] Background: Xtr.Outbred Conditions: Tissue Assay Stages ChIP Antibody oocyte oocyte stage III to oocyte stage IV   oocyte - oocyte V-VI GSM1544075  RNA-Seq Xtr   [-] [+] Background: Xtr.Outbred Conditions: Tissue Assay Stages ChIP Antibody oocyte oocyte stage V to oocyte stage VI   piwil1 oocyte - adult GSM1544071  GSM1544072  CLIP-Seq [-] [+] Background: Xtr.Outbred Conditions: Tissue Assay Stages ChIP Antibody oocyte adult frog stage piwil1 Ab2 piwil1 spermatid - adult GSM1544073  CLIP-Seq [-] [+] Background: Xtr.Outbred Conditions: Tissue Assay Stages ChIP Antibody spermatid adult frog stage piwil1 Ab2 piwil2 oocyte - adult GSM1544070  CLIP-Seq [-] [+] Background: Xtr.Outbred Conditions: Tissue Assay Stages ChIP Antibody oocyte adult frog stage piwil2 Ab1 oocyte - adult GSM1544080  RNA-Seq Xla   [-] [+] Background: Xla.Outbred Conditions: Tissue Assay Stages ChIP Antibody oocyte adult frog stage   piwil1 oocyte - adult GSM1544076  ncRNA-Seq [-] [+] Background: Xla.Outbred Conditions: Tissue Assay Stages ChIP Antibody oocyte adult frog stage piwil1 Ab2 piwil1 oocyte - adult GSM1544078  RIP-Seq [-] [+] Background: Xla.Outbred Conditions: Tissue Assay Stages ChIP Antibody oocyte adult frog stage piwil1 Ab2 piwil2 oocyte - adult GSM1544077  ncRNA-Seq [-] [+] Background: Xla.Outbred Conditions: Tissue Assay Stages ChIP Antibody oocyte adult frog stage piwil2 Ab1 piwil2 oocyte - adult GSM1544079  RIP-Seq [-] [+] Background: Xla.Outbred Conditions: Tissue Assay Stages ChIP Antibody oocyte adult frog stage piwil2 Ab1

Select All  Xtr    Xla

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