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TranscriptomicsP6 Mouse Sertoli Cell Small RNA seq
This study annotates the NGS reads in a Sertoli cell sncRNA library. In addition to known sncRNAs, we also identified numerous novel sncRNAs expressed by Sertoli cells. Our data suggest that the Sertoli cell sncRNA transcriptome predominantly consists of miRNAs, piRNA-like RNAs, tRNAs and snoRNAs....
ORGANISM(S): Mus musculus 
2012-09-08 | E-GEOD-40692 | biostudies-arrayexpress
GenomicsBacterial non-coding RNAs excised from within protein-coding transcripts
Bacterial non-coding RNAs excised from within protein-coding transcripts
PRJEB27518 | ENA
ProteomicsInteractome of the long non-protein coding RNA (lncRNA) D4Z4 binding element-transcript (DBE-T)
Facioscapulohumeral muscular dystrophy (FSHD) is an inherited progressive neuromuscular disorder that afflicts both children and adults regardless of gender. FSHD is caused by aberrant gain of expression of the transcription factor DUX4, which triggers a pro-apoptotic transcriptional program leading...
ORGANISM(S): Homo sapiens (Human) 
2023-04-11 | PXD036038 | Pride
Facioscapulohumeral muscular dystrophy (fshd) Long non-protein coding rna Affinity proteomics 
TranscriptomicsAtypical DNA methylation of genes encoding cysteine-rich peptides in Arabidopsis thaliana
In plants, transposons and non-protein-coding repeats are epigenetically silenced by CG and non-CG methylation. This pattern of methylation is mediated in part by small RNAs and two specialized RNA polymerases, Pol IV and Pol V, in a process called RNA-directed DNA methylation. By contrast, many pr...
ORGANISM(S): Arabidopsis thaliana 
2012-11-22 | E-GEOD-34207 | biostudies-arrayexpress
TranscriptomicsArabidopsis thaliana small RNAs sequences identified using high-throughput 454 sequencing technology
To determine the extent to which the major small RNA pathways functions across the Arabidopsis thaliana genome, small RNA populations from several tissues of wild-type (wt) and mutant plants were amplified by RT-PCR and sequenced using high-throughput 454 sequencing technology. Keywords: small RNAs,...
ORGANISM(S): Arabidopsis thaliana 
2007-02-01 | E-GEOD-6682 | biostudies-arrayexpress
GenomicsRNA polymerase V targets transcriptional silencing components to promoters of protein-coding genes
Transcriptional gene silencing controls transposons and other repetitive elements through RNA-directed DNA methylation (RdDM) and heterochromatin formation. A key component of the Arabidopsis RdDM pathway is ARGONAUTE4 (AGO4), which associates with sizs to mediate DNA methylation. Here, we show that...
ORGANISM(S): Arabidopsis thaliana 
2012-10-17 | E-GEOD-35381 | biostudies-arrayexpress
TranscriptomicsArgonaute-bound small RNAs from promoter-proximal RNA Polymerase II
Argonaute (Ago) proteins mediate post-transcriptional gene repression by binding guide microRNAs (miRNAs) to regulate targeted RNAs. To confidently assess Agobound small RNAs, we adapted a mouse embryonic stem cell system to express a single inducible epitope-tagged Ago protein. Here, we report t...
ORGANISM(S): Mus musculus 
2014-03-13 | E-GEOD-50595 | biostudies-arrayexpress
ProteomicsEnzymatic Site-specific Biotinylation Enables Analysis of RNA-protein Interactions and Enrichment of Cellular RNA
The importance of RNA in regulating cellular processes has generated tremendous interest in methods to reliably characterize RNAs and their interactions within cells. Existing methodologies rely on noncovalent interactions to facilitate RNA affinity purification, hindering the purification of less a...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-03-13 | MSV000085100 | MassIVE
TranscriptomicsSmall RNA deep-sequencing identifies microRNAs and other small non-coding RNAs from human herpesvirus 6 (HHV-6B)
Roseolovirus, or human herpesvirus 6 (HHV-6) is a ubiquitous human pathogen infecting over 95% of the population by the age of two years. As with other herpesviruses, reactivation of HHV-6 can present with severe complications in immunocompromised individuals. Recent studies have highlighted the imp...
ORGANISM(S): Human herpesvirus 6B 
2012-01-01 | E-GEOD-34196 | biostudies-arrayexpress
TranscriptomicsRNA at 92 M-BM-0C: the non-coding transcriptome of the hyperthermophilic archaeon Pyrococcus abyssi.
The non-coding transcriptome of the hyperthermophilic archaeon Pyrococcus abyssi is investigated using the RNA-seq technology. A dedicated computational pipeline analyzes RNA-seq reads and prior genome annotation to identify small RNAs, untranslated regions of mRNAs, and cis-encoded antisense transc...
ORGANISM(S): Pyrococcus abyssi 
2014-05-31 | E-GEOD-58131 | biostudies-arrayexpress
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