Erratum: OncoScore: a novel, Internet-based tool to assess the oncogenic potential of genes

  title={Erratum: OncoScore: a novel, Internet-based tool to assess the oncogenic potential of genes},
  author={Rocco Piazza and Daniele Ramazzotti and Roberta Spinelli and Alessandra Pirola and Luca De Sano and Pierangelo Ferrari and Vera Magistroni and Nicoletta Cordani and Nitesh D. Sharma and Carlo B Gambacorti-Passerini},
  journal={Scientific Reports},
This corrects the article DOI: 10.1038/srep46290. 
8 Citations

In silico analyses reveal new putative Breast Cancer RNA-binding proteins

Six putative BC progressors, and five BC suppressors RBPs, which have never been studied in BC but show similar cancer-associated features than well-known BC proteins are identified.

Personal Cancer Genome Reporter: variant interpretation report for precision oncology

This work has developed a stand-alone, open-source software package for somatic variant annotation that integrates a comprehensive set of knowledge resources related to tumor biology and therapeutic biomarkers, both at the gene and variant level.

Prediction of breast cancer proteins involved in immunotherapy, metastasis, and RNA-binding using molecular descriptors and artificial neural networks

This powerful model predicts several BC-related proteins that should be deeply studied to find new biomarkers and better therapeutic targets.

Roadmap of DNA methylation in breast cancer identifies novel prognostic biomarkers

368 DNA methylation changes that characterize breast cancer tumor tissue are identified, of which 209 are associated with genes that are differentially-expressed in the same samples, which shows promise as diagnostic and prognostic markers in breast cancer as well as other cancer types.

Laying the foundation for genomically-based risk assessment in chronic myeloid leukemia

The aim of this article is to review publications that reported mutated cancer-associated genes in CML patients at various disease phases and to discuss the frequency and type of such variants at initial diagnosis and at the time of treatment failure and transformation.

Alternative methylation of intron motifs is associated with cancer-related gene expression in both canine mammary tumor and human breast cancer

This study provides good evidence for the conservation of epigenetic regulation in CMT and HBC, and suggests that intronic methylation can be an important factor in better understanding gene regulation in both CMTand HBC.

Genome-wide association and transcriptome studies identify target genes and risk loci for breast cancer

It is hypothesized that some risk-associated variants might act in non-breast tissues, specifically adipose tissue and immune cells from blood and spleen, using expression quantitative trait loci reported in these tissues to identify 26 previously unreported, likely target genes of overall breast cancer risk variants, and 17 for estrogen receptor (ER)-negative breast cancer, several with a known immune function.



MiR200c targets IRS1 and suppresses prostate cancer cell growth

It is shown that miR 200c is a posttranscriptional regulator of insulin receptor substrate 1 (IRS1) and over‐expression of miR200c suppresses prostate cancer cell growth.

RBM5 as a putative tumor suppressor gene for lung cancer.

  • L. SutherlandKe WangA. Robinson
  • Biology
    Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer
  • 2010
To more thoroughly assess the potential involvement of RBM5 as a lung cancer regulatory protein, more research is required regarding (a) the expression of not only full-length R BM5 but all of the alternate variants associated with the locus, in relation to histologic subtype and smoking history, and (b) the mutation status of various genes within the transforming growth factor-alpha signaling pathway.

GeneRanker: An Online System for Predicting Gene-Disease Associations for Translational Research

GeneRanker is an online system that allows researchers to obtain a ranked list of genes potentially related to a specific disease or biological process by combining gene-disease associations with protein-protein interactions extracted from the literature, using computational analysis of the protein network topology to more accurately rank the predicted associations.

Targeting CDC25C, PLK1 and CHEK1 to overcome Docetaxel resistance induced by loss of LZTS1 in prostate cancer

The findings identify an important role of LZTS1 through its regulation ofCDC25C in Docetaxel resistance in prostate cancer and suggest that CDC25C, or the mitotic kinases CHEK1 and PLK1, could be efficient therapeutic targets to overcome Docetxel resistance.

mRNA expression of the putative antimetastatic gene BRMS1 and of apoptosis-related genes in breast cancer.

The results point towards a possible link between BRMS1 expression and apoptosis in human breast cancer through a relationship with the expression of genes belonging to the X-chromosome RBM family.

Fusion of NUP98 and the SET binding protein 1 (SETBP1) gene in a paediatric acute T cell lymphoblastic leukaemia with t(11;18)(p15;q12)

Fluorescent in situ hybridisation showed NUP98 and SET binding protein 1(SETBP1) fusion signals; other analyses showed that exon 12 of N UP98 was fused in‐frame with exon 5 of SETBP1, suggesting that NUP 98/SETBP 1 transcript is pathogenetically important.

Exome sequencing identifies secondary mutations of SETBP1 and JAK3 in juvenile myelomonocytic leukemia

JMML was characterized by a paucity of gene mutations with somatic or germline RAS pathway involvement in 82 cases, and the SETBP1 and JAK3 genes were among common targets for secondary mutations.

Deletion, methylation, and expression of the NKX3.1 suppressor gene in primary human prostate cancer.

Even in the presence of allelic loss, NKX3.1 expression is reduced over a wide range in prostate cancer at the time of prostatectomy, suggesting that diverse factors influence expression.

Characterization of the Genomic Architecture and Mutational Spectrum of a Small Cell Prostate Carcinoma

A variety of methods were used to analyze and interpret the tumor genome for copy number variation, loss of heterozygosity (LOH), somatic mosaicism and mutations in genes from known cancer pathways.

ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data

The ANNOVAR tool to annotate single nucleotide variants and insertions/deletions, such as examining their functional consequence on genes, inferring cytogenetic bands, reporting functional importance scores, finding variants in conserved regions, or identifying variants reported in the 1000 Genomes Project and dbSNP is developed.