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TranscriptomicsNext generation sequencing identifies discrete classes of box C/D snoRNAs featuring different ends and RNA binding protein dependency
The paired-end next-generation sequencing of all small RNAs of less than 200 nucleotides in length from four different human cell lines (SKOV3ip1, MCF-7, BJ-Tielf, INOF) allowed us to determine the exact sequence(s) and variations of human box C/D snoRNAs (small nucleolar RNAs), revealing processing...
ORGANISM(S): Homo sapiens 
2014-07-01 | E-GEOD-55946 | biostudies-arrayexpress
TranscriptomicsSmall nucleolar RNAs as new biomarkers in chronic lymphocytic leukemia
Small nucleolar RNAs (snoRNAs) and small Cajal body-specific RNAs are non-coding RNAs involved in the maturation of other RNA molecules. Alterations of sno/scaRNA expression may play a role in cancerogenesis. This study elucidates the patterns of sno/scaRNA expression in highly purified cells from 2...
ORGANISM(S): Homo sapiens 
2014-03-24 | E-GEOD-46261 | biostudies-arrayexpress
TranscriptomicsSmall RNA deep sequencing of cellular subcompartments
RNA deep sequencing efforts have revealed abundant expression of small RNAs derived from small nucleolar (sno) RNAs. We employ here spatial RNA deep sequencing to assess the expression of 10-40 nt small RNAs in subcellular compartments of HeLa cells. Total cellular, cytoplasmic, nuclear and nucleola...
ORGANISM(S): Homo sapiens 
2014-05-07 | E-GEOD-50057 | biostudies-arrayexpress
TranscriptomicsRNA-Seq of monoclonal cell lines after CRISPR/Cas9-mediated editing of the small nucleolar RNA host-gene GAS5
In this study monoclonal cell lines carrying mutations in the small nucleolar RNA host-gene GAS5 were obtained. Next, Poly(A) RNA-seq and Small RNA-seq analyses of obtained cell lines were performed on an Illumina NextSeq 500 platform. Poly(A) RNA-seq libraries was constructed on polyA mRNA-enriched...
ORGANISM(S): Homo sapiens 
2023-11-14 | E-MTAB-13515 | biostudies-arrayexpress
GenomicsChIP-Seq of human endogenous small RNAs associated to Argonaute 1 and 2
Small non-coding RNAs function in concert with Argonaute (Ago) proteins to regulate gene expression at the level of transcription, mRNA stability or translation. Ago proteins bind small RNAs and form the core of silencing complexes. Here we report the analysis of small RNAs associated with human ...
ORGANISM(S): Homo sapiens 
2008-11-20 | E-GEOD-13370 | biostudies-arrayexpress
TranscriptomicsFunctional diversity and convergence of small non-coding RNAs in male germ cell differentiation and fertilization (piRNA and endo-siRNAs)
The small non-coding RNAs (sncRNAs) are considered as postranscriptional key regulators of male germ cell development. In addition to microRNAs (miRNAs) and PIWI-interacting RNAs (piRNAs), other sncRNAs generated from small nucleolar RNAs (snoRNAs), tRNAs or rRNAs processing may also play important ...
ORGANISM(S): Mus musculus 
2015-03-26 | E-GEOD-59254 | biostudies-arrayexpress
TranscriptomicsSmall nucleolar RNAs and small Cajal body-specific RNAs show distinct transcriptional profiles in the context of the molecular heterogeneity of multiple myeloma.
Small nucleolar RNAs (snoRNAs) and small Cajal body-specific RNAs (scaRNAs) are non-coding RNAs involved in the maturation of other RNA molecules and generally located in the introns of host genes. It is now emerging that altered sno/scaRNAs expression may play a pathological role in cancer. This st...
ORGANISM(S): Homo sapiens 
2013-06-25 | E-GEOD-39683 | biostudies-arrayexpress
TranscriptomicsGlobal identification and characterization of intermediate-size non-coding RNAs in Oryza sativa
In this study, we employed a special size fractionation and cDNA library construction method followed by 454 deep sequencing to systematically profile rice intermediate-size ncRNAs. Our analysis resulted in the identification of 1349 ncRNAs in total, including 754 novel ncRNAs of an unknown function...
ORGANISM(S): Oryza sativa Japonica Group 
2012-07-27 | E-GEOD-39695 | biostudies-arrayexpress
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
TranscriptomicsFunctional diversity and convergence of small non-coding RNAs in male germ cell differentiation and fertilization (mRNA analysis)
The small non-coding RNAs (sncRNAs) are considered as postranscriptional key regulators of male germ cell development. In addition to microRNAs (miRNAs) and PIWI-interacting RNAs (piRNAs), other sncRNAs generated from small nucleolar RNAs (snoRNAs), tRNAs or rRNAs processing may also play important ...
ORGANISM(S): Mus musculus 
2015-03-26 | E-GEOD-59252 | biostudies-arrayexpress
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