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TranscriptomicssiRNA profiling of HeLa cells reveals strand-specific 5-O-methylation of siRNA duplexes controls guide strand selection and targeting specificity.
Small interfering RNAs (siRNAs) and microRNAs (miRNAs) guide catalytic sequence-specific cleavage of fully or nearly fully complementary target mRNAs or control translation and/or stability of many mRNAs that share 6-8 nucleotides (nt) of complementarity to the siRNA and miRNA 5' end. siRNA- and miR...
ORGANISM(S): Homo sapiens 
2008-06-11 | E-GEOD-10960 | biostudies-arrayexpress
TranscriptomicsFunctional characterization of C. elegans Y-box binding proteins reveals tissue-specific functions and a critical role in the formation of polysomes
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Caenorhabditis elegans 
2015-01-08 | E-GEOD-62861 | biostudies-arrayexpress
GenomicsPerinuclear anchoring of H3K9-methylated chromatin stabilizes induced cell fate
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Caenorhabditis elegans 
2015-12-11 | E-GEOD-74134 | biostudies-arrayexpress
TranscriptomicsFunctional characterization of C. elegans Y-box binding proteins reveals tissue-specific functions and a critical role in the formation of polysomes (RIP-Seq)
We present a basic characterization of the function of Y-box binding proteins (YBPs) in C. elegans. YBPs in other organisms are known RNA-binding proteins. Our global analysis of associated mRNAs supports a role of YBPs as general mRNA binders in C.elegans. FLAG IPs were performed on transgenic anim...
ORGANISM(S): Caenorhabditis elegans 
2015-01-08 | E-GEOD-62856 | biostudies-arrayexpress
TranscriptomicsTarget mRNAs induce tailing and trimming of Ago2-loaded miRNAs in neurons
We show that target mRNAs trigger the non-templated addition of nucleotides (mainly adenosines and uridines) and shortening of their cognate miRNAs in primary hippocampal neurons. The induced effect is observable both in total RNA and in Ago2-associated RNA, demonstrating that the process is initiat...
ORGANISM(S): Rattus norvegicus 
2015-03-02 | E-GEOD-57663 | biostudies-arrayexpress
TranscriptomicsmicroRNA decay analysis in the first larval stage Caenorhabditis elegans
microRNAs (miRNAs) constitute a class of small non-coding RNAs (~22nt). They are thought to be generally stable with half-lives of many hours or even days. However, several miRNAs have been reported to decay rapidly in specific situations. In order to examine miRNA stability on a global scale, we qu...
ORGANISM(S): Caenorhabditis elegans 
2014-02-06 | E-GEOD-46753 | biostudies-arrayexpress
TranscriptomicsIdentification of GLD-1 target mRNAs
To determine which mRNAs are bound by GLD-1 we performed GLD-1 and MYC (as a negative control) immunoprecipitation experiments on wildtype animals. A total of 6 samples was analyzed (triplicates of GLD-1 IPs and MYC IPs respectively)
ORGANISM(S): Caenorhabditis elegans 
2012-06-17 | E-GEOD-33081 | biostudies-arrayexpress
TranscriptomicsRNA-seq for monitoring expression changes in absence of chromatin anchoring
RNA-seq for monitoring expression levels in mutants that do not anchor chromatin at the nuclear periphery. RNA-seq of depleted rRNA samples of early embryo extracts for three different genotypes: wild-type, cec-4_delta and met-2 set-25_delta_delta, in two independent biological replicas
ORGANISM(S): Caenorhabditis elegans 
2015-12-11 | E-GEOD-74067 | biostudies-arrayexpress
GenomicsLEM-2 ChIP-seq to study chromatin anchoring
Chromatin Immunoprecipitation against the nuclear envelope protein LEM-2 to detect association to the nuclear periphery. LEM-2 ChIP was performed on early embryo fixed extracts for wild-type and two mutants that have altered position of a perinuclear chromatin reporter. LEM-2 ChIP on early embryo ch...
ORGANISM(S): Caenorhabditis elegans 
2015-12-11 | E-GEOD-74133 | biostudies-arrayexpress
TranscriptomicsFunctional characterization of C. elegans Y-box binding proteins reveals tissue-specific functions and a critical role in the formation of polysomes (RNA-Seq)
We present a basic characterization of the function of Y-box binding proteins in C. elegans. Besides playing an important role for fertility in the germline (all four CEY proteins), we found that the presence of CEY-1 and CEY-4 is essential for the assembly of larger polysomes in the soma. We theref...
ORGANISM(S): Caenorhabditis elegans 
2015-01-08 | E-GEOD-62858 | biostudies-arrayexpress
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