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Discovery and characterization of coding and non-coding driver mutations in more than 2,500 whole cancer genomes

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Outgoing claims: the papers this work cites, builds on, or argues with.

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Non-coding recurrent mutations in chronic lymphocytic leukaemia
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Absolute quantification of somatic DNA alterations in human cancer
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Recurrent somatic mutations in regulatory regions of human cancer genomes
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CTCF/cohesin-binding sites are frequently mutated in cancer
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Somatic ERCC2 mutations are associated with a distinct genomic signature in urothelial tumors
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A mutational signature reveals alterations underlying deficient homologous recombination repair in breast cancer
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The emerging role of lncRNAs in cancer
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MiR-663, a microRNA targeting p21WAF1/CIP1, promotes the proliferation and tumorigenesis of nasopharyngeal carcinoma
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MicroRNA-25 promotes gastric cancer migration, invasion and proliferation by directly targeting transducer of ERBB2, 1 and correlates with poor survival
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Discovery of Cancer Driver Long Noncoding RNAs across 1112 Tumour Genomes: New Candidates and Distinguishing Features
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Reflections on studies of gene expression in aneuploids
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Genomic and Epigenomic Landscapes of Adult De Novo Acute Myeloid Leukemia
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Analysis of 13 cell types reveals evidence for the expression of numerous novel primate- and tissue-specific microRNAs
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Epigenetic inactivation of the p53-induced long noncoding RNA TP53 target 1 in human cancer
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Statistical Methods for Research Workers
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Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration
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tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence
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NCBI Epigenomics: a new public resource for exploring epigenomic data sets
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Rfam 11.0: 10 years of RNA families
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Human G-proteins, ObgH1 and Mtg1, associate with the large mitochondrial ribosome subunit and are involved in translation and assembly of respiratory complexes
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miRBase: annotating high confidence microRNAs using deep sequencing data
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The NHGRI GWAS Catalog, a curated resource of SNP-trait associations
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Conserved regions of ribonucleoprotein ribonuclease MRP are involved in interactions with its substrate
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Recurrent promoter mutations in melanoma are defined by an extended context-specific mutational signature
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Non-coding cancer driver candidates identified with a sample- and position-specific model of the somatic mutation rate

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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A Pan-cancer Transcriptome Analysis Reveals Pervasive Regulation through Alternative Promoters
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Selective Roles of Vertebrate PCF11 in Premature and Full-Length Transcript Termination
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Candidate Cancer Driver Mutations in Distal Regulatory Elements and Long-Range Chromatin Interaction Networks
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The U1 spliceosomal RNA is recurrently mutated in multiple cancers
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Discovery of common and rare genetic risk variants for colorectal cancer
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The landscape of selection in 551 esophageal adenocarcinomas defines genomic biomarkers for the clinic
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Identification of cancer driver genes based on nucleotide context
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Estimating the Frequency of Single Point Driver Mutations across Common Solid Tumours
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Novel Mutation Hotspots within Non-Coding Regulatory Regions of the Chronic Lymphocytic Leukemia Genome
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A practical framework and online tool for mutational signature analyses show intertissue variation and driver dependencies
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Leveraging protein dynamics to identify cancer mutational hotspots using 3D structures
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OncodriveCLUSTL: a sequence-based clustering method to identify cancer drivers
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Genomic basis for RNA alterations revealed by whole-genome analyses of 27 cancer types
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Tumour mutations in long noncoding RNAs enhance cell fitness
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A deep learning system can accurately classify primary and metastatic cancers based on patterns of passenger mutations
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Tumor mutational landscape is a record of the pre-malignant state
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Pathogenic impact of transcript isoform switching in 1209 cancer samples covering 27 cancer types using an isoform-specific interaction network
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Frequent extrachromosomal oncogene amplification drives aggressive tumors
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Non‐coding regulatory elements: Potential roles in disease and the case of epilepsy
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TERT gene: its function and dysregulation in cancer
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Mapping and Making Sense of Noncoding Mutations in the Genome
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Genomics of PDGFR-rearranged hypereosinophilic syndrome
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Passenger mutations accurately classify human tumors
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Recurrent somatic mutations reveal new insights into consequences of mutagenic processes in cancer
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Elevated pyrimidine dimer formation at distinct genomic bases underlies promoter mutation hotspots in UV-exposed cancers
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Tumour mutations in long noncoding RNAs enhance cell fitness
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Genome-wide imputed differential expression enrichment analysis identifies trait-relevant tissues
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Sequence Neighborhoods Enable Reliable Prediction of Pathogenic Mutations in Cancer Genomes
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