Published in Science on September 14, 2007
Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature (2008) 75.40
Assessing the significance of chromosomal aberrations in cancer: methodology and application to glioma. Proc Natl Acad Sci U S A (2007) 18.83
The mutational landscape of head and neck squamous cell carcinoma. Science (2011) 16.88
Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples. Nat Biotechnol (2013) 16.13
A landscape of driver mutations in melanoma. Cell (2012) 12.61
Diverse somatic mutation patterns and pathway alterations in human cancers. Nature (2010) 10.83
Advances in understanding cancer genomes through second-generation sequencing. Nat Rev Genet (2010) 10.15
Mutual exclusivity analysis identifies oncogenic network modules. Genome Res (2011) 7.22
Common vs. rare allele hypotheses for complex diseases. Curr Opin Genet Dev (2009) 6.85
Frequent mutations of chromatin remodeling genes in transitional cell carcinoma of the bladder. Nat Genet (2011) 5.73
Medulloblastoma exome sequencing uncovers subtype-specific somatic mutations. Nature (2012) 5.23
MuSiC: identifying mutational significance in cancer genomes. Genome Res (2012) 4.73
The genetic landscape of high-risk neuroblastoma. Nat Genet (2013) 4.71
Functional copy-number alterations in cancer. PLoS One (2008) 4.27
Whole-genome and whole-exome sequencing of bladder cancer identifies frequent alterations in genes involved in sister chromatid cohesion and segregation. Nat Genet (2013) 3.87
Frequent mutations of genes encoding ubiquitin-mediated proteolysis pathway components in clear cell renal cell carcinoma. Nat Genet (2011) 3.66
Clinical implications of the cancer genome. J Clin Oncol (2010) 3.11
Making sense of cancer genomic data. Genes Dev (2011) 3.01
Functional impact bias reveals cancer drivers. Nucleic Acids Res (2012) 2.96
Recurrent somatic mutation of FAT1 in multiple human cancers leads to aberrant Wnt activation. Nat Genet (2013) 2.59
Emerging patterns of somatic mutations in cancer. Nat Rev Genet (2013) 2.50
Harnessing transposons for cancer gene discovery. Nat Rev Cancer (2010) 2.44
Visualizing multidimensional cancer genomics data. Genome Med (2013) 2.19
Mutational heterogeneity in human cancers: origin and consequences. Annu Rev Pathol (2010) 2.02
Genetic and clonal dissection of murine small cell lung carcinoma progression by genome sequencing. Cell (2014) 1.85
Simultaneous identification of multiple driver pathways in cancer. PLoS Comput Biol (2013) 1.71
Mutation patterns in cancer genomes. Proc Natl Acad Sci U S A (2009) 1.69
Expanding the computational toolbox for mining cancer genomes. Nat Rev Genet (2014) 1.60
Somatic mutation of CDKN1B in small intestine neuroendocrine tumors. Nat Genet (2013) 1.56
Somatic mutation as a mechanism of Wnt/β-catenin pathway activation in CLL. Blood (2014) 1.55
PathScan: a tool for discerning mutational significance in groups of putative cancer genes. Bioinformatics (2011) 1.46
PARADIGM-SHIFT predicts the function of mutations in multiple cancers using pathway impact analysis. Bioinformatics (2012) 1.43
Recurrent and functional regulatory mutations in breast cancer. Nature (2017) 1.39
Analytical methods for inferring functional effects of single base pair substitutions in human cancers. Hum Genet (2009) 1.39
Genomic landscape of cutaneous T cell lymphoma. Nat Genet (2015) 1.27
Cancer driver mutations in protein kinase genes. Cancer Lett (2008) 1.24
Evolution of the cancer genome. Trends Genet (2012) 1.22
DriverNet: uncovering the impact of somatic driver mutations on transcriptional networks in cancer. Genome Biol (2012) 1.21
VarWalker: personalized mutation network analysis of putative cancer genes from next-generation sequencing data. PLoS Comput Biol (2014) 1.20
Exome sequencing of pleuropulmonary blastoma reveals frequent biallelic loss of TP53 and two hits in DICER1 resulting in retention of 5p-derived miRNA hairpin loop sequences. Oncogene (2014) 1.20
Domain landscapes of somatic mutations in cancer. BMC Genomics (2012) 1.14
Anticancer activity of the cholesterol exporter ABCA1 gene. Cell Rep (2012) 1.14
Our changing view of the genomic landscape of cancer. J Pathol (2010) 1.13
A novel missense-mutation-related feature extraction scheme for 'driver' mutation identification. Bioinformatics (2012) 1.04
Modeling mutual exclusivity of cancer mutations. PLoS Comput Biol (2014) 1.01
Basic principles and technologies for deciphering the genetic map of cancer. World J Surg (2009) 0.96
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Targeted or whole genome sequencing of formalin fixed tissue samples: potential applications in cancer genomics. Oncotarget (2015) 0.89
A DNA transposon-based approach to validate oncogenic mutations in the mouse. Proc Natl Acad Sci U S A (2008) 0.88
TESTING SIGNIFICANCE OF FEATURES BY LASSOED PRINCIPAL COMPONENTS. Ann Appl Stat (2008) 0.87
Robust gene expression and mutation analyses of RNA-sequencing of formalin-fixed diagnostic tumor samples. Sci Rep (2015) 0.86
Developing a tissue resource to characterize the genome of pancreatic cancer. World J Surg (2009) 0.86
Revealing selection in cancer using the predicted functional impact of cancer mutations. Application to nomination of cancer drivers. BMC Genomics (2013) 0.85
Discovering tumor suppressor genes through genome-wide copy number analysis. Curr Genomics (2010) 0.83
DNA fingerprinting techniques for the analysis of genetic and epigenetic alterations in colorectal cancer. Mutat Res (2010) 0.83
Germline PKHD1 mutations are protective against colorectal cancer. Hum Genet (2011) 0.82
Cancer gene discovery in mouse and man. Biochim Biophys Acta (2009) 0.81
Finding driver pathways in cancer: models and algorithms. Algorithms Mol Biol (2012) 0.81
Next-generation sequencing: hype and hope for development of personalized radiation therapy? Radiat Oncol (2015) 0.80
Genomic tools in acute myeloid leukemia: From the bench to the bedside. Cancer (2014) 0.79
Sparse expression bases in cancer reveal tumor drivers. Nucleic Acids Res (2015) 0.79
Personalized pathway enrichment map of putative cancer genes from next generation sequencing data. PLoS One (2012) 0.77
Crystal and EM structures of human phosphoribosyl pyrophosphate synthase I (PRS1) provide novel insights into the disease-associated mutations. PLoS One (2015) 0.77
High-content analysis of cancer genome DNA alterations. Curr Opin Genet Dev (2008) 0.77
High-throughput analysis of chromosome translocations and other genome rearrangements in epithelial cancers. Genome Med (2010) 0.75
The consensus coding sequences of human breast and colorectal cancers. Science (2006) 60.02
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A (2005) 167.46
Initial sequencing and comparative analysis of the mouse genome. Nature (2002) 96.15
Statistical significance for genomewide studies. Proc Natl Acad Sci U S A (2003) 88.64
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
MicroRNA expression profiles classify human cancers. Nature (2005) 69.12
Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature (2007) 65.18
EGFR mutations in lung cancer: correlation with clinical response to gefitinib therapy. Science (2004) 61.56
PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes. Nat Genet (2003) 53.59
The structure of haplotype blocks in the human genome. Science (2002) 50.88
A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell (2006) 48.80
Integrative genomics viewer. Nat Biotechnol (2011) 42.83
Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1. Cancer Cell (2010) 39.09
Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature (2009) 35.48
Repeated observation of breast tumor subtypes in independent gene expression data sets. Proc Natl Acad Sci U S A (2003) 34.68
The landscape of somatic copy-number alteration across human cancers. Nature (2010) 31.88
The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity. Nature (2012) 31.78
Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals. Nature (2005) 31.60
Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature (2008) 30.29
Somatic mutations affect key pathways in lung adenocarcinoma. Nature (2008) 30.02
Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science (2009) 29.83
Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature (2003) 29.16
GenePattern 2.0. Nat Genet (2006) 29.07
Transcriptional regulatory code of a eukaryotic genome. Nature (2004) 27.21
Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing. Nat Biotechnol (2009) 27.17
EGFR mutation and resistance of non-small-cell lung cancer to gefitinib. N Engl J Med (2005) 26.35
The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease. Science (2006) 25.99
Sparse inverse covariance estimation with the graphical lasso. Biostatistics (2007) 24.38
Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration. Brief Bioinform (2012) 23.58
Genome sequence, comparative analysis and haplotype structure of the domestic dog. Nature (2005) 23.04
High-quality draft assemblies of mammalian genomes from massively parallel sequence data. Proc Natl Acad Sci U S A (2010) 22.97
ARACHNE: a whole-genome shotgun assembler. Genome Res (2002) 22.72
Detecting recent positive selection in the human genome from haplotype structure. Nature (2002) 22.00
Signatures of mutational processes in human cancer. Nature (2013) 21.63
A molecular signature of metastasis in primary solid tumors. Nat Genet (2002) 21.36
Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc Natl Acad Sci U S A (2009) 20.66
ALLPATHS: de novo assembly of whole-genome shotgun microreads. Genome Res (2008) 20.61
International network of cancer genome projects. Nature (2010) 20.35
Genomic maps and comparative analysis of histone modifications in human and mouse. Cell (2005) 18.96
Assessing the significance of chromosomal aberrations in cancer: methodology and application to glioma. Proc Natl Acad Sci U S A (2007) 18.83
A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen. Cell (2006) 18.81
Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs. Nat Biotechnol (2010) 18.44
The mammalian epigenome. Cell (2007) 18.13
Activating mutation in the tyrosine kinase JAK2 in polycythemia vera, essential thrombocythemia, and myeloid metaplasia with myelofibrosis. Cancer Cell (2005) 17.41
Initial genome sequencing and analysis of multiple myeloma. Nature (2011) 17.28
Genome-wide detection and characterization of positive selection in human populations. Nature (2007) 17.27
BRAF mutation predicts sensitivity to MEK inhibition. Nature (2005) 17.14
Risk alleles for multiple sclerosis identified by a genomewide study. N Engl J Med (2007) 17.06
The mutational landscape of head and neck squamous cell carcinoma. Science (2011) 16.88
Meta-analysis of genetic association studies supports a contribution of common variants to susceptibility to common disease. Nat Genet (2003) 16.51
Characterizing the cancer genome in lung adenocarcinoma. Nature (2007) 16.48
Dissecting direct reprogramming through integrative genomic analysis. Nature (2008) 16.47
Assessing the impact of population stratification on genetic association studies. Nat Genet (2004) 16.28
Gene expression correlates of clinical prostate cancer behavior. Cancer Cell (2002) 16.27
Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples. Nat Biotechnol (2013) 16.13
Impaired microRNA processing enhances cellular transformation and tumorigenesis. Nat Genet (2007) 15.46
Prediction of central nervous system embryonal tumour outcome based on gene expression. Nature (2002) 15.36
Integrative genomic analyses identify MITF as a lineage survival oncogene amplified in malignant melanoma. Nature (2005) 15.28
Genetic mapping in human disease. Science (2008) 15.12
The genomic complexity of primary human prostate cancer. Nature (2011) 14.06
Diffuse large B-cell lymphoma outcome prediction by gene-expression profiling and supervised machine learning. Nat Med (2002) 14.01
The NIH Roadmap Epigenomics Mapping Consortium. Nat Biotechnol (2010) 13.99
MLL translocations specify a distinct gene expression profile that distinguishes a unique leukemia. Nat Genet (2001) 13.79
mTOR inhibition reverses Akt-dependent prostate intraepithelial neoplasia through regulation of apoptotic and HIF-1-dependent pathways. Nat Med (2004) 13.57
Microarray analysis reveals a major direct role of DNA copy number alteration in the transcriptional program of human breast tumors. Proc Natl Acad Sci U S A (2002) 12.68
High-throughput oncogene mutation profiling in human cancer. Nat Genet (2007) 12.68
A landscape of driver mutations in melanoma. Cell (2012) 12.61
High-resolution mapping of copy-number alterations with massively parallel sequencing. Nat Methods (2008) 12.56