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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Next generation sequencing for profiling expression of miRNAs: technical progress and applications in drug development.
TL;DR: The technical advancement of NGS for profiling miRNAs is reviewed, including comparative analyses between different platforms and software packages for analyzing NGS data.
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p53 is positively regulated by miR-542-3p
TL;DR: The development of a cell-based assay used with a library of human miRNA mimics in a high-throughput screen for miRNAs that modulate p53 expression defines miR-542-3p as an important new positive regulator of p53 with potential applications in cancer treatment.
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MicroRNAs in Smoking-Related Carcinogenesis: Biomarkers, Functions, and Therapy.
TL;DR: The most recent and useful findings of miRNA analyses focused on lung cancer and urinary bladder cancer, which are strongly associated with cigarette smoking, are introduced and the utility of miRNAs as clinical biomarkers are discussed.
Journal ArticleDOI
Identification of novel microRNAs regulating HLA-G expression and investigating their clinical relevance in renal cell carcinoma
Simon Jasinski-Bergner,Adi Reches,Christine Stoehr,Chiara Massa,Evamaria Gonschorek,Stefan Huettelmaier,Juliane Braun,Sven Wach,Bernd Wullich,Verena Spath,Ena Wang,Francesco M. Marincola,Ofer Mandelboim,Arndt Hartmann,Barbara Seliger +14 more
TL;DR: Two novel HLA-G-regulatory miRs, miR-548q and miR -628-5p, were identified and might serve as future therapeutic targets in RCC and may represent a powerful strategy to enhance the immunogenicity of RCC lesions.
Journal ArticleDOI
Prox1 suppresses the proliferation of neuroblastoma cells via a dual action in p27-Kip1 and Cdc25A.
Iosifina P. Foskolou,Dimitris Stellas,Ismini Rozani,Matthieu D. Lavigne,Panagiotis K. Politis +4 more
TL;DR: Evidence is provided that Prox1 strongly suppresses the proliferation of mouse and human neuroblastoma cell lines and blocks the growth of neuroblastomas tumors in SCID mice and renders Prox 1 a candidate target for the treatment of neuro Blastoma tumors.
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