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TranscriptomicsGlobal analysis of the RNA-protein interaction and RNA secondary structure landscapes of the Arabidopsis nucleus
Post-transcriptional regulation in eukaryotes requires cis- and trans-acting features and factors including RNA secondary structure, and RNA-binding proteins (RBPs). However, a comprehensive view of the structural and RBP interaction landscape of RNAs in the nucleus has yet to be compiled for any or...
ORGANISM(S): Arabidopsis thaliana 
2014-12-16 | E-GEOD-58974 | biostudies-arrayexpress
ProteomicsSerial interactome capture of the human cell nucleus
Novel RNA-guided cellular functions are paralleled by an increasing number of RNA binding proteins (RBPs). We present “serial interactome capture” (serIC), a multiple purification procedure of UV-crosslinked poly(A)-RNA-protein complexes that enables global RBP detection with maximal specificity. We...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2016-10-21 | MSV000080265 | MassIVE
UnknownA Holistic Analysis of Alzheimer's Disease-Associated lncRNA Communities Reveals Enhanced lncRNA-miRNA-RBP Regulatory Triad Formation Within Functionally Segregated Clusters.
Not available
S-EPMC11324768 | biostudies-literature
TranscriptomicsRNA-seq of murine bone marrow-derived macrophages (mBMDM) of the wild type (WT) group versus the RBP-J conditionally knockout (CKO) group at 36 hours post HTNV (Hantaan orthohantavirus) infection
Total RNA was extracted from WT and RBP-JCKO mBMDMs at 36 hpi (HTMV, MOI=1), using TRIzol (Invitrogen). Ribosomal RNA was removed using the Ribo-Zero™ kit (Epicentre Biotechnologies). Fragmented RNA (the average length was approximately 200 bp) was subjected to first-strand and second-strand cDNA sy...
ORGANISM(S): Mus musculus 
2022-07-22 | E-MTAB-11926 | biostudies-arrayexpress
TranscriptomicsIdentification of transcripts bound by an RNA binding protein (RBP) in early erythroid progenitor using RNA-binding protein immunoprecipitation-microarray (RIP-Chip) experiment
Early erythroid progenitors were isolated from mouse E14.5 fetal liver. After cell lysing, control IgG or RBP specific antibody were incubated with cell lysis. Immunoprecipitation followed by microarray experiments were carried out to identify transcripts that are immunoprecipitated by either contro...
ORGANISM(S): Mus musculus 
2013-06-14 | E-GEOD-46108 | biostudies-arrayexpress
TranscriptomicsIdentification of genes regulated by glucocorticoids and an RNA binding protein (RBP) in early erythroid progenitor using microarray experiment
Early erythroid progenitors were isolated from mouse E14.5 fetal liver, infected with viruses encoding either control shRNA or shRNAs targeting the RNA binding protein (RBP), and cultured in a medium containing stem cell factor, erythropoietin, and insulin-like growth factor 1, in the absence or pre...
ORGANISM(S): Mus musculus 
2013-06-14 | E-GEOD-46215 | biostudies-arrayexpress
UnknownMsx2-interacting nuclear target protein (Mint) deficiency reveals negative regulation of early thymocyte differentiation by Notch/RBP-J signaling.
Not available
S-EPMC1785279 | biostudies-literature
ProteomicsSerial interactome capture of the human cell nucleus
Novel RNA-guided cellular functions are paralleled by an increasing number of RNA binding proteins (RBPs). We present “serial interactome capture” (serIC), a multiple purification procedure of UV-crosslinked poly(A)-RNA-protein complexes that enables global RBP detection with maximal specificity. We...
ORGANISM(S): Homo sapiens (Human) 
2016-03-31 | PXD003664 | Pride
Rna binding proteins  interactome capture  nuclear rna binding proteome 
ProteomicsA global screening identifies chromatin-enriched RNA-binding proteins and the transcriptional regulatory activity of QKI5 during monocytic differentiation [RBP screening K562 cells]
We process mass spectrome datasets of RNA binding proteins(RBPs) in soluble nuclear extract (SNE) and chromatin-pellet extract (CPE) from K562 cells.
ORGANISM(S): Homo sapiens (Human) 
2021-09-27 | PXD028668 | Pride
Nuclear rbp  k562 cells 
ProteomicsA global screening identifies chromatin-enriched RNA-binding proteins and the transcriptional regulatory activity of QKI5 during monocytic differentiation [RBP screening 293T cells]
We process mass spectrome datasets of RNA binding proteins(RBPs) in soluble nuclear extract (SNE) and chromatin-pellet extract (CPE) from 293T cells.
ORGANISM(S): Homo sapiens (Human) 
2021-09-27 | PXD028660 | Pride
Nuclear rbp  293t cells 
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