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TranscriptomicsIntegrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins
This SuperSeries is composed of the following subset Series: GSE34992: Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins (splice array) GSE34993: Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP p...
ORGANISM(S): Homo sapiens 
2012-02-20 | E-GEOD-34996 | biostudies-arrayexpress
TranscriptomicsNuclear Matrix Factor hnRNP U/SAF-A Exerts a Global Control of Alternative Splicing by Regulating U2 snRNP Maturation
The nuclear matrix associated hnRNP U/SAF-A protein has been implicated in diverse pathways from transcriptional regulation to telomere length control to X inactivation, but the precise mechanism underlying each of these processes has remained elusive. Here, we report hnRNP U as a regulator of SM...
ORGANISM(S): Homo sapiens 
2012-02-16 | E-GEOD-34491 | biostudies-arrayexpress
TranscriptomicshnRNP A1 iCLIP
This experiment identifies hnRNP A1 binding sites transcriptome-wide in Hela cells. HeLa cells with inducible expression of T7-tagged hnRNP A1 were grown to approximately 90% confluence and then subject to iCLIP analysis (following the protocol from Huppertz et al. 2014 (iCLIP: protein-RNA interact...
ORGANISM(S): Homo sapiens 
2016-06-23 | E-MTAB-3612 | biostudies-arrayexpress
TranscriptomicsTranscriptome-wide mapping of hnRNP C and U2AF65 using iCLIP
iCLIP experiment to assess the binding of the highly abundant nuclear RNA-binding protein hnRNP C and core splicing factor U2AF65 on a genomic scale. To investigate how both proteins compete for binding at a subset of sites, U2AF65 iCLIP experiments were performed from both HNRNPC knockdown and cont...
ORGANISM(S): Homo sapiens 
2013-01-31 | E-MTAB-1371 | biostudies-arrayexpress
TranscriptomicsIntegrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins (RNA-Seq)
Understanding how RNA binding proteins control the splicing code is fundamental to human biology and disease. Here we present a comprehensive study to elucidate how heterogeneous nuclear ribonucleoparticle (hnRNP) proteins, among the most abundant RNA binding proteins, coordinate to regulate alterna...
ORGANISM(S): Homo sapiens 
2012-02-20 | E-GEOD-34995 | biostudies-arrayexpress
TranscriptomicsIntegrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins (CLIP-Seq)
Understanding how RNA binding proteins control the splicing code is fundamental to human biology and disease. Here we present a comprehensive study to elucidate how heterogeneous nuclear ribonucleoparticle (hnRNP) proteins, among the most abundant RNA binding proteins, coordinate to regulate alterna...
ORGANISM(S): Homo sapiens 
2012-02-20 | E-GEOD-34993 | biostudies-arrayexpress
TranscriptomicsIndividual-nucleotide resolution CLIP and high-throughput sequencing to map hnRNP L-RNA interactions in HeLa cells
Individual-nucleotide resolution UV-crosslinking and immunoprecipitation (iCLIP) combined with high-throughput sequencing was used to generate a transcriptome-wide binding map of hnRNP L. Supplementary file GSE37560_hnRNPL_crosslink_site.bed includes filtered crosslink sites of hnRNPL: combining da...
ORGANISM(S): Homo sapiens 
2014-02-13 | E-GEOD-37560 | biostudies-arrayexpress
TranscriptomicsCombinatorial role of two paralogous splicing factors, hnRNP L and L-like, in multiple-exon regulation of CD45 alternative splicing
The goal of this study was to investigate the role of hnRNP L-like in alternative pre-mRNA splicing in human B-cells through an RNA-Seq approach. RNA-Seq was performed in DG75 cell line with over expression of hnRNP L-like or GFP as control.
ORGANISM(S): Homo sapiens 
2012-03-28 | E-GEOD-33013 | biostudies-arrayexpress
GenomicsMetastasis-repressive CircRNA MASCOT Regulates Distribution of the Splicing Factor hnRNP M
Metastasis-repressive CircRNA MASCOT Regulates Distribution of the Splicing Factor hnRNP M
PRJNA694988 | ENA
TranscriptomicsRNAi profiling by array of human HeLa cells with hnRNP C siRNA knockdown using a splice-junction microarray to detect changes in alternative splicing.
poly(A)+ RNA samples from hnRNP C siRNA knockdown and control HeLa cells were compared on a splice-junction microarray to detect changes in alternative splicing. Using the ASPIRE3 algorithm, we detected changes in splicing at 1,340 alternative exons. We observed a similar incidence of increased or d...
ORGANISM(S): Homo sapiens 
2010-10-01 | E-MTAB-367 | biostudies-arrayexpress
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