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TranscriptomicsA comprehensive Xist interactome reveals cohesin repulsion and an RNA-directed chromosome conformation
The inactive X chromosome (Xi) serves as a model to understand gene silencing on a global scale. Here, we perform identification of direct RNA interacting proteins? (iDRiP) to isolate a comprehensive protein interactome for Xist, an RNA required for Xi silencing. We discover multiple classes of inte...
ORGANISM(S): Mus musculus 
2015-06-19 | E-GEOD-67516 | biostudies-arrayexpress
GenomicsReDD: RNA editing detection by direct RNA sequencing and deep learning
ReDD: RNA editing detection by direct RNA sequencing and deep learning
PRJNA1109379 | ENA
UnknownE2-regulated transcriptome complexity revealed by long-read direct RNA sequencing: from isoform discovery to truncated proteins.
Not available
S-EPMC12456218 | biostudies-literature
UnknownDirect RNA nanopore sequencing of full-length coronavirus genomes provides novel insights into structural variants and enables modification analysis.
Not available
S-EPMC6724671 | biostudies-literature
TranscriptomicsMultiple platform assessment and isomir analysis of the EGF dependent microRNA-ome by microarray and deep sequencing analysis [small RNA-seq]
We have used an integrative high content analysis approach to identify the specific miRNAs implicated in EGF signaling in HeLa cells as potential mediators of cancer mediated functions. We have used microarray and deep-sequencing technologies in order to obtain a global view of the EGF miRNA transcr...
ORGANISM(S): Homo sapiens 
2013-06-11 | E-GEOD-41359 | biostudies-arrayexpress
OtherReDD: RNA editing detection by direct RNA sequencing and deep learning
Many previous studies, including the Next Generation Sequencing (NGS)-based ones, have shown the critical roles of RNA editing in biomedicine. Direct RNA sequencing emerges as another powerful technique to advance the understanding of RNA editing by new paradigms, especially in single-molecule and l...
ORGANISM(S): Homo sapiens 
2024-05-08 | GSE267030 | GEO
TranscriptomicsSenescence-associated lncRNAs: senescence-associated long noncoding RNAs.
Noncoding RNAs include small transcripts, such as microRNAs and piwi-interacting RNAs, and a wide range of long noncoding RNAs (lncRNAs). Although many lncRNAs have been identified, only a small number of lncRNAs have been characterized functionally. Here, we sought to identify lncRNAs differentiall...
ORGANISM(S): Homo sapiens 
2016-02-08 | E-GEOD-77675 | biostudies-arrayexpress
GenomicsComprehensive mapping of long-range interactions reveals folding principles of the human genome.
We describe Hi-C, a method that probes the three-dimensional architecture of whole genomes by coupling proximity-based ligation with massively parallel sequencing. We constructed spatial proximity maps of the human genome with Hi-C at a resolution of 1Mb. These maps confirm the presence of chromosom...
ORGANISM(S): Homo sapiens 
2009-10-09 | E-GEOD-18199 | biostudies-arrayexpress
UnknownDe novo Sequencing of Novel Mycoviruses From Fusarium sambucinum: An Attempt on Direct RNA Sequencing of Viral dsRNAs.
Not available
S-EPMC8076516 | biostudies-literature
GenomicsHigh-density resolution of the Kaposi’s Sarcoma associated Herpesvirus transcriptome identifies novel transcript isoforms generated by long-range transcription and alternative splicing [BCBL-1-direct-cDNA-Seq]
High-density resolution of the Kaposi’s Sarcoma associated Herpesvirus transcriptome identifies novel transcript isoforms generated by long-range transcription and alternative splicing [BCBL-1-direct-cDNA-Seq]
PRJNA1054051 | ENA
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