Deep sequencing reveals differential expression of microRNAs in favorable versus unfavorable neuroblastoma
Johannes H. Schulte,Tobias Marschall,Marcel Martin,Philipp Rosenstiel,Pieter Mestdagh,Stefanie Schlierf,Theresa Thor,Jo Vandesompele,Angelika Eggert,Stefan Schreiber,Sven Rahmann,Alexander Schramm +11 more
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TLDR
In this paper, the authors analyzed the small RNA transcriptomes of five favorable and five unfavorable NBs using SOLiD next-generation sequencing, generating a total of >188 000 000 reads.Abstract:
Small non-coding RNAs, in particular microRNAs(miRNAs), regulate fine-tuning of gene expression and can act as oncogenes or tumor suppressor genes. Differential miRNA expression has been reported to be of functional relevance for tumor biology. Using next-generation sequencing, the unbiased and absolute quantification of the small RNA transcriptome is now feasible. Neuroblastoma(NB) is an embryonal tumor with highly variable clinical course. We analyzed the small RNA transcriptomes of five favorable and five unfavorable NBs using SOLiD next-generation sequencing, generating a total of >188 000 000 reads. MiRNA expression profiles obtained by deep sequencing correlated well with real-time PCR data. Cluster analysis differentiated between favorable and unfavorable NBs, and the miRNA transcriptomes of these two groups were significantly different. Oncogenic miRNAs of the miR17-92 cluster and the miR-181 family were overexpressed in unfavorable NBs. In contrast, the putative tumor suppressive microRNAs, miR-542-5p and miR-628, were expressed in favorable NBs and virtually absent in unfavorable NBs. In-depth sequence analysis revealed extensive post-transcriptional miRNA editing. Of 13 identified novel miRNAs, three were further analyzed, and expression could be confirmed in a cohort of 70 NBs.read more
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Complementary Strand MicroRNAs Mediate Acquisition of Metastatic Potential in Colonic Adenocarcinoma
Dung Tsa Chen,Jonathan M. Hernandez,Jonathan M. Hernandez,David Shibata,Susan McCarthy,Leigh Ann Humphries,Whalen Clark,Whalen Clark,Abul Elahi,Mike Gruidl,Domenico Coppola,Timothy J. Yeatman +11 more
TL;DR: A seven-miRNA signature that is associated with metastatic potential in the primary tumor is identified, suggesting direct tumor suppressive function and further supporting the biological importance of complementary strand miRNA.
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miR-1271 promotes non-small-cell lung cancer cell proliferation and invasion via targeting HOXA5.
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Concordant and discordant regulation of target genes by miR-31 and its isoforms.
Yu-Tzu Chan,Yu-Tzu Chan,You-Chin Lin,Ruey-Jen Lin,Huan-Hsien Kuo,Wai-Cheng Thang,Kuo Ping Chiu,Alice L. Yu,Alice L. Yu +8 more
TL;DR: Dicer was revealed to be a direct target of miR-31 and it was demonstrated that isomiRs displayed similar and disparate regulation of target genes in cell-based systems, supporting the possibility of fine-tuning gene expression by miRNAs.
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MicroRNA biomarkers in glioblastoma.
Simon Kjær Hermansen,Simon Kjær Hermansen,Bjarne Winther Kristensen,Bjarne Winther Kristensen +3 more
TL;DR: An overview of current knowledge about miRNA alterations in glioblastoma is presented while focusing on the clinical future of miRNAs as biomarkers and discussing the strengths and weaknesses of various methods used in evaluating their expression.
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Micro-RNAs as potential new molecular biomarkers in oncology: have they reached relevance for the clinical imaging sciences?
TL;DR: S Sophisticated clinical imaging biomarkers for cancer detection and monitoring should now been correlatively applied to further validate the potential of miRNAs as oncologic biomarker for the clinic.
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