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TranscriptomicsTranscriptome-wide identification of LIN28A targets in mouse embryonic stem cell (A3-1) [Illumina Seq]
LIN28A is a highly-conserved RNA-binding protein which is known to be involved in embryonic development, stem cell maintenance and proliferation. LIN28A is expressed in various types of cancer, and they are associated with advanced tumor malignancy. In embryonic stem cell, LIN28A specifically binds ...
ORGANISM(S): Mus musculus 
2012-10-25 | E-GEOD-37111 | biostudies-arrayexpress
TranscriptomicsFlag-RBM47 HITS-CLIP in brain metastatic derivatives of MDA-MB-231
Brain metastatic breast cancer cells were subjected to HITS-CLIP to identify the targets of the RNA binding protein RBM47 MDA231-BrM2a is characterized in PMID: 19421193; Related data published together with these data are found in GSE53779 Non-clonal brain metastatic breast cancer cells stably exp...
ORGANISM(S): Homo sapiens 
2014-06-11 | E-GEOD-58380 | biostudies-arrayexpress
TranscriptomicsRemodeling of Ago2-mRNA interactions upon cellular stress reflects miRNA complementarity and correlates with altered translation rates (part 2)
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Ago2/microRNA machinery has been shown to participate in stre...
ORGANISM(S): Homo sapiens 
2013-07-15 | E-GEOD-44377 | biostudies-arrayexpress
TranscriptomicsMLE HITS-CLIP in Drosophila S2 cells
HITS-CLIP was carried out on wild-type Schneider (S2) cells using specific MLE antibodies to identify binding sites for MLE in the Drosophila transcriptome
ORGANISM(S): Drosophila melanogaster 
2013-10-30 | E-MTAB-1706 | biostudies-arrayexpress
TranscriptomicsSomatic Primary piRNA Biogenesis Driven by Cis-Acting RNA Elements and Trans- Acting Yb
Primary piRNAs in Drosophila ovarian somatic cells arise from piRNA cluster transcripts and the 3′ UTRs of a subset of mRNAs, including Traffic jam (Tj) mRNA. However, it is unclear how these RNAs are determined as primary piRNA sources. Here, we identify a cis-acting 100-nt fragment in the Tj 3′ UT...
ORGANISM(S): Drosophila melanogaster 
2015-06-05 | E-GEOD-69625 | biostudies-arrayexpress
TranscriptomicsTARBP2 HITS-CLIP
In order to identify TARBP2 binding sites on endogenous RNA, we performed HITS-CLIP on a myc-tagged TARBP2 expressing cell-line (transient transfection) Cells were transfected with tagged TARBP2 vector (Origene) and 48-hr post-transfection, they were subjected to the HITS-CLIP procedure (Licatalosi ...
ORGANISM(S): Homo sapiens 
2014-07-24 | E-GEOD-49648 | biostudies-arrayexpress
TranscriptomicsHITS-CLIP analysis uncovers a link between the Kaposi's sarcoma associated herpesvirus ORF57 protein and host pre-mRNA metabolism
The Kaposi's sarcoma associated herpesvirus (KSHV) is an oncogenic virus that causes Kaposi's sarcoma, primary effusion lymphoma (PEL), and some forms of multicentric Castleman's disease. The KSHV ORF57 protein is a conserved posttranscriptional regulator of gene expression that is essential for vir...
ORGANISM(S): Homo sapiens 
2015-02-01 | E-GEOD-64413 | biostudies-arrayexpress
UnknownKinetic and Structural Characterization of the Self-Labeling Protein Tags HaloTag7, SNAP-tag, and CLIP-tag.
Not available
S-EPMC8388125 | biostudies-literature
TranscriptomicsCLIP-seq of S. cerevisiae Drn1-TAP and Dbr1-TAP
Data for replicate Drn1-TAP and Dbr1-TAP CLIP-seq experiments to identify RNA-protein interactions Drn1-TAP and Dbr1-TAP CLIP-seq
ORGANISM(S): Saccharomyces cerevisiae 
2013-06-28 | E-GEOD-44959 | biostudies-arrayexpress
TranscriptomicsMixture models and wavelet transforms reveal high confidence RNA-protein interaction sites in MOV10 PAR-CLIP data
The Photo-Activatable Ribonucleoside-enhanced CrossLinking and ImmunoPrecipitation (PAR-CLIP) method was recently developed for global identification of RNAs interacting with proteins. The strength of this versatile method results from induction of specific T to C transitions at sites of interaction...
ORGANISM(S): Homo sapiens 
2012-08-07 | E-GEOD-37524 | biostudies-arrayexpress
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