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TranscriptomicsProcessing of Drosophila endo-siRNAs depends on a specific Loquacious isoform
Drosophila melanogaster expresses three classes of small RNAs, which are classified according to their mechanisms of biogenesis. MicroRNAs are ~22-23-nt, ubiquitously expressed small RNAs that are sequentially processed from hairpin-like precursors by Drosha/Pasha and Dcr-1/Loquacious complexes. Mic...
ORGANISM(S): Drosophila melanogaster 
2009-07-30 | E-GEOD-17171 | biostudies-arrayexpress
GenomicsHP1BP3, a chromatin retention factor for co-transcriptional microRNA processing (ChIP-Seq)
Identification and characterization of HP1BP3 (a human histone H1 homologue) as a novel chromatin retention factor essential for the co-transcriptional processing of pri-miRNA. We generated BAC transgenic cells at 80% confluency (~1x107) were cross-linked with 1% formaldehyde for 10 minutes at 37°C...
ORGANISM(S): Homo sapiens 
2016-07-24 | E-GEOD-77854 | biostudies-arrayexpress
TranscriptomicsMutations in the SIX1/2 pathway and the DROSHA/DGCR8 miRNA microprocessor complex underlie high-risk blastemal type Wilms tumors
Blastemal histology in chemotherapy-treated pediatric Wilms tumors (nephroblastoma) is associated with adverse prognosis. To uncover the underlying tumor biology and find novel therapeutic leads for this subgroup of patients, we analyzed 58 blastemal-type Wilms tumors by exome and transcriptome sequ...
ORGANISM(S): Homo sapiens 
2015-02-18 | E-GEOD-60081 | biostudies-arrayexpress
TranscriptomicsA biogenesis step upstream of Microprocessor controls miR-17~92 expression
The precise control of miR-17~92 microRNA (miRNA) is essential for normal development and overexpression of certain miRNAs from this cluster is oncogenic. Here we find the relative expression of the six miRNAs processed from the primary (pri-miR-17~92) transcript is dynamically regulated during embr...
ORGANISM(S): Mus musculus 
2015-05-11 | E-GEOD-68699 | biostudies-arrayexpress
TranscriptomicsGlobal microRNA expression analysis in HaCaT human keratinocytes transfected with siRNA(s) for p72, NF2/LATS2, DROSHA/DGCR8, or negative control
Global downregulation of microRNAs (miRNAs) is commonly observed in human cancers and can have a causative role in tumorigenesis. The mechanisms responsible for this phenomenon remain poorly understood. Here we show that YAP, the downstream target of the tumor-suppressive Hippo signaling pathway reg...
ORGANISM(S): Homo sapiens 
2014-03-03 | E-GEOD-52186 | biostudies-arrayexpress
TranscriptomicsIsolation and sequencing of AGO-bound RNAs reveals characteristics of stem-loop processing in vivo
MicroRNA precursors (pre-miRNAs) are short hairpin RNAs that are rapidly processed into mature microRNAs (miRNAs) in the cytoplasm. Due to their low abundance in cells, sequencing-based studies of pre-miRNAs have been limited. We successfully enriched for and deep sequenced pre-miRNAs in human cells...
ORGANISM(S): Homo sapiens 
2016-07-30 | E-GEOD-71710 | biostudies-arrayexpress
TranscriptomicsGlobal identification of target recognition and cleavage by the Microprocessor in human ESCs.
The Microprocessor plays an essential role in canonical miRNA biogenesis by facilitating cleavage of stem-loop structures in primary transcripts to yield pre-miRNAs. Although miRNA biogenesis has been extensively studied through biochemical and molecular genetic approaches, it has yet to be addresse...
ORGANISM(S): Homo sapiens 
2014-10-02 | E-GEOD-61979 | biostudies-arrayexpress
GenomicsHP1BP3, a chromatin retention factor for co-transcriptional microRNA processing
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2016-07-24 | E-GEOD-77856 | biostudies-arrayexpress
TranscriptomicsRNAi knock down of mRNA decapping co-activators in Drosophila S2 cells
We analyzed mRNA expression profiles in Drosophila melanogaster S2 cells that had been depleted of proteins known as mRNA decapping co-activators. mRNA decapping is catalyzed by DCP2, and DCP2 activity is stimulated by decapping co-activators. This group of proteins includes DCP1, Hedls (also known ...
ORGANISM(S): Drosophila melanogaster 
2007-09-03 | E-MEXP-1012 | biostudies-arrayexpress
GenomicsDeconstructing the dynamic transcriptional program of pluripotent stem cells.
Pluripotent stem cells (PSCs) are capable of dynamic interconversion between distinct substates, but the regulatory circuits specifying these states and enabling transitions between them are not well understood. We set out to address this issue and map the landscape of gene expression variability in...
ORGANISM(S): Mus musculus 
2014-12-04 | E-GEOD-60749 | biostudies-arrayexpress
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