Rapid and systematic analysis of the RNA recognition specificities of RNA-binding proteins

2009 ◽  
Vol 27 (7) ◽  
pp. 667-670 ◽  
Author(s):  
Debashish Ray ◽  
Hilal Kazan ◽  
Esther T Chan ◽  
Lourdes Peña Castillo ◽  
Sidharth Chaudhry ◽  
...  
Keyword(s):  
Binding Proteins ◽  
Rna Binding ◽  
Rna Binding Proteins ◽  
Rna Recognition ◽  
Systematic Analysis

scholarly journals Genomic and cDNA selection-amplification identifies transcriptome-wide binding sites for the Drosophila protein sex-lethal

PLoS ONE ◽  
2021 ◽  
Vol 16 (5) ◽  
pp. e0250592
Author(s):  
Hiren Banerjee ◽  
Ravinder Singh
Keyword(s):  
Binding Sites ◽  
Binding Proteins ◽  
Rna Binding ◽  
Developmental Stages ◽  
Rna Binding Proteins ◽  
Systematic Analysis ◽  
Downstream Targets ◽  
Drosophila Protein ◽  
Sex Lethal ◽  
Female Specific

Background Downstream targets for a large number of RNA-binding proteins remain to be identified. The Drosophila master sex-switch protein Sex-lethal (SXL) is an RNA-binding protein that controls splicing, polyadenylation, or translation of certain mRNAs to mediate female-specific sexual differentiation. Whereas some targets of SXL are known, previous studies indicate that additional targets of SXL have escaped genetic screens. Methodology/Principal findings Here, we have used an alternative molecular approach of GEnomic Selective Enrichment of Ligands by Exponential enrichment (GESELEX) using both the genomic DNA and cDNA pools from several Drosophila developmental stages to identify new potential targets of SXL. Our systematic analysis provides a comprehensive view of the Drosophila transcriptome for potential SXL-binding sites. Conclusion/Significance We have successfully identified new SXL-binding sites in the Drosophila transcriptome. We discuss the significance of our analysis and that the newly identified binding sites and sequences could serve as a useful resource for the research community. This approach should also be applicable to other RNA-binding proteins for which downstream targets are unknown.

scholarly journals RNA recognition motifs of disease-linked RNA-binding proteins contribute to amyloid formation

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Sashank Agrawal ◽  
Pan-Hsien Kuo ◽  
Lee-Ya Chu ◽  
Bagher Golzarroshan ◽  
Monika Jain ◽  
...  
Keyword(s):  
Binding Proteins ◽  
Rna Binding ◽  
Rna Binding Proteins ◽  
Amyloid Formation ◽  
Rna Recognition ◽  
Rna Recognition Motifs ◽  
Recognition Motifs

scholarly journals RNA recognition motifs involved in nuclear import of RNA-binding proteins

RNA Biology ◽  
2010 ◽  
Vol 7 (3) ◽  
pp. 339-344 ◽  
Author(s):  
Alejandro Cassola ◽  
Griselda Noé ◽  
Alberto C. Frasch
Keyword(s):  
Nuclear Import ◽  
Binding Proteins ◽  
Rna Binding ◽  
Rna Binding Proteins ◽  
Rna Recognition ◽  
Rna Recognition Motifs ◽  
Recognition Motifs

scholarly journals Systematic analysis of the function and prognostic value of RNA binding proteins in Colon Adenocarcinoma

2021 ◽  
Vol 12 (9) ◽  
pp. 2537-2549
Author(s):  
Xuewei Qi ◽  
Zeyu Liu ◽  
Qiaoli Zhang ◽  
Ming Yang ◽  
Yuxiang Wan ◽  
...  
Keyword(s):  
Prognostic Value ◽  
Binding Proteins ◽  
Rna Binding ◽  
Rna Binding Proteins ◽  
Colon Adenocarcinoma ◽  
Systematic Analysis
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