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TranscriptomicsTranscription profiling of Xenopus laevis early gastrulation embryos injected with alpha-amanitin against RNA polymerase II activity
Xenopus laevis embryos were injected with alpha-amanitin to inhibit RNA polymerase II activity. Embryos were allowed to develop up to stage 10.5 (early gastrula, control and alpha-amanitin injected embryos) and subsequently collected for RNA isolation. The transcriptome profiles of alpha-amanitin in...
ORGANISM(S): Xenopus laevis 
2016-03-07 | E-MTAB-3614 | biostudies-arrayexpress
TranscriptomicsA Genome-Wide Survey of Maternal and Embryonic Transcripts during Xenopus tropicalis Development
To analyze the dynamics and diversity of coding and non-coding transcripts during development, both polyadenylated mRNA and ribosomal RNA-depleted total RNA were harvested across six developmental stages and subjected to high throughput sequencing. The maternally loaded transcriptome is highly diver...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2013-11-12 | E-GEOD-43652 | biostudies-arrayexpress
TranscriptomicsNucleotide composition-linked divergence of vertebrate core promoter architecture
Transcription initiation involves the recruitment of basal transcription factors to the core promoter. A variety of core promoter elements exists, however for most of these motifs the distribution across species is unknown. Here we report on the comparison of human and amphibian promoter sequences. ...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2010-12-30 | E-GEOD-21482 | biostudies-arrayexpress
TranscriptomicsChIP-chip Designs to Interrogate the Xenopus Embryo Genome for Transcription Factor Binding and Epigenetic Regulation
Background: Chromatin immunoprecipitation combined with genome tile path microarrays or deep sequencing can be used to study genome-wide epigenetic profiles and the transcription factor binding repertoire. Although well studied in a variety of cell lines, these genome-wide profiles have so far been ...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2010-05-17 | E-GEOD-19413 | biostudies-arrayexpress
GenomicsA Hierarchy of H3K4me3 and H3K27me3 Acquisition in Spatial Gene Regulation in Xenopus Embryos
Epigenetic mechanisms set apart the active and inactive regions in the genome of multicellular organisms to produce distinct cell fates during embryogenesis. Here, we report on the epigenetic and transcriptome genome-wide maps of gastrula-stage Xenopus tropicalis embryos using massive parallel seque...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2009-09-15 | E-GEOD-14025 | biostudies-arrayexpress
TranscriptomicsGlobal absolute quantification reveals tight regulation of protein expression in single Xenopus eggs
Recent developments in genomic sequencing technology have enabled comprehensive transcriptome analyses of single cells. In contrast, single cell proteomics analyses have been restricted to targeted analyses, for example using flow cytometry with GFP fusions or mass cytometry. Here, we performed glob...
ORGANISM(S): Xenopus laevis 
2014-08-04 | E-GEOD-56586 | biostudies-arrayexpress
GenomicsTemporal uncoupling of the DNA methylome and transcriptional repression during embryogenesis
DNA methylation is a tightly regulated epigenetic mark associated with transcriptional repression. Next-generation sequencing of purified methylated DNA obtained from early Xenopus tropicalis embryos demonstrates that this genome is heavily methylated during blastula and gastrula stages. Although DN...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2011-06-23 | E-GEOD-23913 | biostudies-arrayexpress
ProteomicsXlaevis - Embryo, SC (Smitsetal,nar2014)
abundance based on Spectral counting, Interaction consistency score: 10.4, Coverage: 5
ORGANISM(S): 8355 
2014-00-00 | 2958988326 | PAXDB
ProteomicsXlaevis - Embryo, SC (Smitsetal,nar2014)
abundance based on Spectral counting, Interaction consistency score: 12.1, Coverage: 5
ORGANISM(S): 8355 
2014-00-00 | 299207925 | PAXDB
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