Multi-omic analysis reveals significantly mutated genes and DDX3X as a sex-specific tumor suppressor in cutaneous melanoma
暂无分享,去创建一个
H. Najafabadi | R. Alkallas | P. Lefrançois | I. Watson | A. Spatz | D. Moldoveanu | Mathieu Lajoie | K. Watters | J. Zippin | K. Hoang | Marine Lingrand | Mozhdeh Ahanfeshar-Adams
[1] A. Regev,et al. Integrative molecular and clinical modeling of clinical outcomes to PD1 blockade in patients with metastatic melanoma , 2019, Nature Medicine.
[2] J. Pearson,et al. Whole-genome landscape of mucosal melanoma reveals diverse drivers and therapeutic targets , 2019, Nature Communications.
[3] D. Schadendorf,et al. The X-Linked DDX3X RNA Helicase Dictates Translation Reprogramming and Metastasis in Melanoma. , 2019, Cell reports.
[4] Mark J Daly,et al. Burden of unique and low prevalence somatic mutations correlates with cancer survival , 2019, Scientific Reports.
[5] P. Mundra,et al. Publisher Correction: Ultraviolet radiation–induced DNA damage is prognostic for outcome in melanoma , 2018, Nature Medicine.
[6] P. Mundra,et al. Ultraviolet radiation–induced DNA damage is prognostic for outcome in melanoma , 2018, Nature Medicine.
[7] J. Flowers,et al. Origins and geographic diversification of African rice (Oryza glaberrima) , 2018, bioRxiv.
[8] Steven A Roberts,et al. ETS transcription factors induce a unique UV damage signature that drives recurrent mutagenesis in melanoma , 2018, Nature Communications.
[9] R. Gelber,et al. Cancer immunotherapy efficacy and patients' sex: a systematic review and meta-analysis. , 2018, The Lancet. Oncology.
[10] Chuang Tan,et al. Universal Patterns of Selection in Cancer and Somatic Tissues , 2018, Cell.
[11] Ville Mustonen,et al. The repertoire of mutational signatures in human cancer , 2018, Nature.
[12] G. Getz,et al. Genomic correlates of response to immune checkpoint blockade in microsatellite-stable solid tumors , 2018, Nature Genetics.
[13] Steven J. M. Jones,et al. The Immune Landscape of Cancer , 2018, Immunity.
[14] Thawfeek M. Varusai,et al. The Reactome Pathway Knowledgebase , 2017, Nucleic Acids Res..
[15] M. Nielsen,et al. NetMHCpan-4.0: Improved Peptide–MHC Class I Interaction Predictions Integrating Eluted Ligand and Peptide Binding Affinity Data , 2017, The Journal of Immunology.
[16] Gene W. Yeo,et al. A Large-Scale Binding and Functional Map of Human RNA Binding Proteins , 2017, bioRxiv.
[17] Charles H. Yoon,et al. An immunogenic personal neoantigen vaccine for patients with melanoma , 2017, Nature.
[18] Catherine A. Shang,et al. Whole-genome landscapes of major melanoma subtypes , 2017, Nature.
[19] A. Butte,et al. xCell: digitally portraying the tissue cellular heterogeneity landscape , 2017, bioRxiv.
[20] Erik Larsson,et al. Recurrent promoter mutations in melanoma are defined by an extended context-specific mutational signature , 2017, bioRxiv.
[21] R. Halaban,et al. Spitz nevi and Spitzoid melanomas - Exome sequencing and comparison to conventional melanocytic nevi and melanomas , 2016, Modern Pathology.
[22] D. Schadendorf,et al. The protein phosphatase 2A regulatory subunit PR70 is a gonosomal melanoma tumor suppressor gene , 2016, Science Translational Medicine.
[23] M. Lauss,et al. Consensus of Melanoma Gene Expression Subtypes Converges on Biological Entities. , 2016, The Journal of investigative dermatology.
[24] Andrew J. Dunford,et al. Tumor suppressor genes that escape from X-inactivation contribute to cancer sex bias , 2016, Nature Genetics.
[25] Allison P. Heath,et al. Toward a Shared Vision for Cancer Genomic Data. , 2016, The New England journal of medicine.
[26] Stephen R. Piccolo,et al. A cloud-based workflow to quantify transcript-expression levels in public cancer compendia , 2016, Scientific Reports.
[27] A. Gonzalez-Perez,et al. OncodriveFML: a general framework to identify coding and non-coding regions with cancer driver mutations , 2016, Genome Biology.
[28] G. McArthur,et al. Targeting metabolic reprogramming as a potential therapeutic strategy in melanoma. , 2016, Pharmacological research.
[29] Anushi Shah,et al. Differential DNA repair underlies mutation hotspots at active promoters in cancer genomes , 2016, Nature.
[30] L. Stein,et al. The Reactome pathway Knowledgebase , 2015, Nucleic Acids Res..
[31] M. Daly,et al. Gender Disparity and Mutation Burden in Metastatic Melanoma. , 2015, Journal of the National Cancer Institute.
[32] K. Dutton-Regester,et al. Recurrent inactivating RASA2 mutations in melanoma , 2015, Nature Genetics.
[33] Radhakrishnan Sabarinathan,et al. Nucleotide excision repair is impaired by binding of transcription factors to DNA , 2015, Nature.
[34] S. Gabriel,et al. Genomic correlates of response to CTLA-4 blockade in metastatic melanoma , 2015, Science.
[35] Jen Jen Yeh,et al. Virtual microdissection identifies distinct tumor- and stroma-specific subtypes of pancreatic ductal adenocarcinoma , 2015, Nature Genetics.
[36] Michael J Parker,et al. Mutations in DDX3X Are a Common Cause of Unexplained Intellectual Disability with Gender-Specific Effects on Wnt Signaling. , 2015, American journal of human genetics.
[37] S. Ariyan,et al. Exome sequencing identifies recurrent mutations in NF1 and RASopathy genes in sun-exposed melanomas , 2015, Nature Genetics.
[38] Rezvan Ehsani,et al. EpiFactors: a comprehensive database of human epigenetic factors and complexes , 2015, Database J. Biol. Databases Curation.
[39] Steven J. M. Jones,et al. Genomic Classification of Cutaneous Melanoma , 2015, Cell.
[40] Matthew E. Ritchie,et al. limma powers differential expression analyses for RNA-sequencing and microarray studies , 2015, Nucleic acids research.
[41] A. Dobrovic,et al. Whole exome sequencing identifies a recurrent RQCD1 P131L mutation in cutaneous melanoma , 2014, Oncotarget.
[42] J. Wolchok,et al. Genetic basis for clinical response to CTLA-4 blockade in melanoma. , 2014, The New England journal of medicine.
[43] V. Setaluri,et al. Cyclic AMP (cAMP) signaling in melanocytes and melanoma. , 2014, Archives of biochemistry and biophysics.
[44] W. Huber,et al. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.
[45] George Michailidis,et al. Critical limitations of consensus clustering in class discovery , 2014, Scientific Reports.
[46] Benjamin Schubert,et al. OptiType: precision HLA typing from next-generation sequencing data , 2014, Bioinform..
[47] J. Shendure,et al. A general framework for estimating the relative pathogenicity of human genetic variants , 2014, Nature Genetics.
[48] B. Bastian. The molecular pathology of melanoma: an integrated taxonomy of melanocytic neoplasia. , 2014, Annual review of pathology.
[49] S. Gabriel,et al. Discovery and saturation analysis of cancer genes across 21 tumor types , 2014, Nature.
[50] Rajiv Narayan,et al. A melanocyte lineage program confers resistance to MAP kinase pathway inhibition , 2013, Nature.
[51] S. Gabriel,et al. Pan-cancer patterns of somatic copy-number alteration , 2013, Nature Genetics.
[52] Robert Gentleman,et al. Software for Computing and Annotating Genomic Ranges , 2013, PLoS Comput. Biol..
[53] T. Ohlmann,et al. The role of the DEAD‐box RNA helicase DDX3 in mRNA metabolism , 2013, Wiley interdisciplinary reviews. RNA.
[54] J. Coebergh,et al. Sex is an independent prognostic indicator for survival and relapse/progression-free survival in metastasized stage III to IV melanoma: a pooled analysis of five European organisation for research and treatment of cancer randomized controlled trials. , 2013, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.
[55] C. Cruciat,et al. RNA Helicase DDX3 Is a Regulatory Subunit of Casein Kinase 1 in Wnt–β-Catenin Signaling , 2013, Science.
[56] David Z. Chen,et al. Architecture of the human regulatory network derived from ENCODE data , 2012, Nature.
[57] Matthew B. Callaway,et al. MuSiC: Identifying mutational significance in cancer genomes , 2012, Genome research.
[58] A. Sivachenko,et al. A Landscape of Driver Mutations in Melanoma , 2012, Cell.
[59] Raymond K. Auerbach,et al. An Integrated Encyclopedia of DNA Elements in the Human Genome , 2012, Nature.
[60] Matthew J. Davis,et al. Exome sequencing identifies recurrent somatic RAC1 mutations in melanoma , 2012, Nature Genetics.
[61] J. Coebergh,et al. Superior outcome of women with stage I/II cutaneous melanoma: pooled analysis of four European Organisation for Research and Treatment of Cancer phase III trials. , 2012, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.
[62] A. McKenna,et al. Absolute quantification of somatic DNA alterations in human cancer , 2012, Nature Biotechnology.
[63] G. Getz,et al. Accurate estimation of homologue-specific DNA concentration-ratios in cancer samples allows long-range haplotyping , 2011 .
[64] Syed Haider,et al. International Cancer Genome Consortium Data Portal—a one-stop shop for cancer genomics data , 2011, Database J. Biol. Databases Curation.
[65] G. Getz,et al. GISTIC2.0 facilitates sensitive and confident localization of the targets of focal somatic copy-number alteration in human cancers , 2011, Genome Biology.
[66] Renaud Gaujoux,et al. A flexible R package for nonnegative matrix factorization , 2010, BMC Bioinformatics.
[67] Matthew D. Wilkerson,et al. ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking , 2010, Bioinform..
[68] Davis J. McCarthy,et al. edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..
[69] D. Pinkel,et al. Somatic activation of KIT in distinct subtypes of melanoma. , 2006, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.
[70] Pablo Tamayo,et al. Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[71] E. Rajpert-De Meyts,et al. The AZFa gene DBY (DDX3Y) is widely transcribed but the protein is limited to the male germ cells by translation control. , 2004, Human molecular genetics.
[72] Steven Henikoff,et al. SIFT: predicting amino acid changes that affect protein function , 2003, Nucleic Acids Res..
[73] M. Daly,et al. PGC-1α-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes , 2003, Nature Genetics.
[74] W. Goggins,et al. The transformation rate of moles (melanocytic nevi) into cutaneous melanoma: a population-based estimate. , 2003, Archives of dermatology.
[75] Tom H. Pringle,et al. The human genome browser at UCSC. , 2002, Genome research.
[76] C. Stratakis,et al. Clinical and molecular features of the Carney complex: diagnostic criteria and recommendations for patient evaluation. , 2001, The Journal of clinical endocrinology and metabolism.
[77] D. Brash. UV Signature Mutations , 2015, Photochemistry and photobiology.
[78] Trevor J Pugh,et al. Mutational heterogeneity in cancer and the search for new cancer genes , 2014 .
[79] A. McKenna,et al. The genetic landscape of clinical resistance to RAF inhibition in metastatic melanoma. , 2014, Cancer discovery.
[80] Melissa C. Greven,et al. An integrated encyclopedia of DNA elements in the human genome , 2014 .
[81] K. Pollard,et al. Detection of nonneutral substitution rates on mammalian phylogenies. , 2010, Genome research.