Published in Hum Mutat on March 01, 2010
Predicting the functional consequences of cancer-associated amino acid substitutions. Bioinformatics (2013) 2.12
TagRecon: high-throughput mutation identification through sequence tagging. J Proteome Res (2010) 1.49
A bioinformatics workflow for variant peptide detection in shotgun proteomics. Mol Cell Proteomics (2011) 1.34
A mass-tolerant database search identifies a large proportion of unassigned spectra in shotgun proteomics as modified peptides. Nat Biotechnol (2015) 1.30
A network-based gene expression signature informs prognosis and treatment for colorectal cancer patients. PLoS One (2012) 1.16
Large-scale mass spectrometric detection of variant peptides resulting from nonsynonymous nucleotide differences. J Proteome Res (2013) 1.14
Proteogenomic strategies for identification of aberrant cancer peptides using large-scale next-generation sequencing data. Proteomics (2014) 0.86
Systematic analysis of the in situ crosstalk of tyrosine modifications reveals no additional natural selection on multiply modified residues. Sci Rep (2014) 0.86
dbDEPC 2.0: updated database of differentially expressed proteins in human cancers. Nucleic Acids Res (2011) 0.82
Advanced Proteogenomic Analysis Reveals Multiple Peptide Mutations and Complex Immunoglobulin Peptides in Colon Cancer. J Proteome Res (2015) 0.80
MSProGene: integrative proteogenomics beyond six-frames and single nucleotide polymorphisms. Bioinformatics (2015) 0.79
A Platform for Designing Genome-Based Personalized Immunotherapy or Vaccine against Cancer. PLoS One (2016) 0.78
Integrating genomic, transcriptomic, and interactome data to improve Peptide and protein identification in shotgun proteomics. J Proteome Res (2014) 0.78
CMPD: cancer mutant proteome database. Nucleic Acids Res (2014) 0.78
Human Proteomic Variation Revealed by Combining RNA-Seq Proteogenomics and Global Post-Translational Modification (G-PTM) Search Strategy. J Proteome Res (2016) 0.78
dbSAP: single amino-acid polymorphism database for protein variation detection. Nucleic Acids Res (2016) 0.75
Human cancer databases (review). Oncol Rep (2014) 0.75
Proteogenomics: Integrating Next-Generation Sequencing and Mass Spectrometry to Characterize Human Proteomic Variation. Annu Rev Anal Chem (Palo Alto Calif) (2016) 0.75
The Mutational Landscape of the Oncogenic MZF1 SCAN Domain in Cancer. Front Mol Biosci (2016) 0.75
CanProVar 2.0: An Updated Database of Human Cancer Proteome Variation. J Proteome Res (2016) 0.75
Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature (2008) 75.40
EGFR mutations in lung cancer: correlation with clinical response to gefitinib therapy. Science (2004) 61.56
The consensus coding sequences of human breast and colorectal cancers. Science (2006) 60.02
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res (2003) 52.80
Human non-synonymous SNPs: server and survey. Nucleic Acids Res (2002) 50.45
Patterns of somatic mutation in human cancer genomes. Nature (2007) 38.41
A census of human cancer genes. Nat Rev Cancer (2004) 36.20
EGF receptor gene mutations are common in lung cancers from "never smokers" and are associated with sensitivity of tumors to gefitinib and erlotinib. Proc Natl Acad Sci U S A (2004) 33.85
Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic Acids Res (2005) 30.44
Involvement of chemokine receptors in breast cancer metastasis. Nature (2001) 26.07
Activation of beta-catenin-Tcf signaling in colon cancer by mutations in beta-catenin or APC. Science (1997) 24.61
Characterization of single-nucleotide polymorphisms in coding regions of human genes. Nat Genet (1999) 24.24
From molecular to modular cell biology. Nature (1999) 23.51
Human Protein Reference Database--2009 update. Nucleic Acids Res (2008) 21.25
Prediction of deleterious human alleles. Hum Mol Genet (2001) 21.00
Global survey of phosphotyrosine signaling identifies oncogenic kinases in lung cancer. Cell (2007) 17.98
Patterns of single-nucleotide polymorphisms in candidate genes for blood-pressure homeostasis. Nat Genet (1999) 17.09
Oncogenic kinase signalling. Nature (2001) 16.30
Genome maintenance mechanisms for preventing cancer. Nature (2001) 16.17
DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions. Nucleic Acids Res (2002) 15.70
Reactome knowledgebase of human biological pathways and processes. Nucleic Acids Res (2008) 15.69
Cancer. Addiction to oncogenes--the Achilles heal of cancer. Science (2002) 14.20
IntAct--open source resource for molecular interaction data. Nucleic Acids Res (2006) 13.82
Discovering genotypes underlying human phenotypes: past successes for mendelian disease, future approaches for complex disease. Nat Genet (2003) 13.60
Human Gene Mutation Database (HGMD): 2003 update. Hum Mutat (2003) 12.88
The COSMIC (Catalogue of Somatic Mutations in Cancer) database and website. Br J Cancer (2004) 12.35
MINT: the Molecular INTeraction database. Nucleic Acids Res (2006) 11.90
BioMart--biological queries made easy. BMC Genomics (2009) 11.06
Predicting the functional consequences of non-synonymous single nucleotide polymorphisms: structure-based assessment of amino acid variation. J Mol Biol (2001) 9.18
Meaningful relationships: the regulation of the Ras/Raf/MEK/ERK pathway by protein interactions. Biochem J (2000) 6.55
SNPs, protein structure, and disease. Hum Mutat (2001) 6.14
Control of oncogenesis and cancer therapy resistance by the transcription factor NF-kappaB. J Clin Invest (2001) 5.87
Menin critically links MLL proteins with LEDGF on cancer-associated target genes. Cancer Cell (2008) 4.20
HGVbase: a human sequence variation database emphasizing data quality and a broad spectrum of data sources. Nucleic Acids Res (2002) 4.08
Cancer informatics vision: caBIG. Cancer Inform (2007) 3.95
LS-SNP: large-scale annotation of coding non-synonymous SNPs based on multiple information sources. Bioinformatics (2005) 3.05
SNPeffect: a database mapping molecular phenotypic effects of human non-synonymous coding SNPs. Nucleic Acids Res (2005) 2.69
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Mutation in the tyrosine kinase domain of epidermal growth factor receptor is a predictive and prognostic factor for gefitinib treatment in patients with non-small cell lung cancer. Clin Cancer Res (2005) 2.30
MIPS: analysis and annotation of genome information in 2007. Nucleic Acids Res (2007) 2.21
Glutathione S-transferase polymorphisms: cancer incidence and therapy. Oncogene (2006) 2.01
The Swiss-Prot variant page and the ModSNP database: a resource for sequence and structure information on human protein variants. Hum Mutat (2004) 1.97
Involvement of a novel chemokine decoy receptor CCX-CKR in breast cancer growth, metastasis and patient survival. Clin Cancer Res (2009) 1.77
Cancer-associated mutations in the MDM2 zinc finger domain disrupt ribosomal protein interaction and attenuate MDM2-induced p53 degradation. Mol Cell Biol (2006) 1.76
Evolution of the phospho-tyrosine signaling machinery in premetazoan lineages. Proc Natl Acad Sci U S A (2008) 1.68
Replacement of normal with mutant alleles in the genome of normal human cells unveils mutation-specific drug responses. Proc Natl Acad Sci U S A (2008) 1.66
Roles and regulation of stat family transcription factors in human breast cancer. Am J Pathol (2004) 1.64
MutDB services: interactive structural analysis of mutation data. Nucleic Acids Res (2005) 1.62
Distribution of human SNPs and its effect on high-throughput genotyping. Hum Mutat (2006) 1.59
PolyDoms: a whole genome database for the identification of non-synonymous coding SNPs with the potential to impact disease. Nucleic Acids Res (2006) 1.58
Protein variety and functional diversity: Swiss-Prot annotation in its biological context. C R Biol (2005) 1.54
Modeling the evolution of protein domain architectures using maximum parsimony. J Mol Biol (2006) 1.53
A mass spectrometry-friendly database for cSNP identification. Nat Methods (2007) 1.43
Polymorphisms of N-acetyltransferases, glutathione S-transferases, microsomal epoxide hydrolase and sulfotransferases: influence on cancer susceptibility. Recent Results Cancer Res (1998) 1.33
Neurofibromin: a general outlook. Clin Genet (2006) 1.31
Plexin-B1 mutations in prostate cancer. Proc Natl Acad Sci U S A (2007) 1.28
Using high-throughput SNP technologies to study cancer. Oncogene (2006) 1.21
The caBIG terminology review process. J Biomed Inform (2008) 1.08
Structure SNP (StSNP): a web server for mapping and modeling nsSNPs on protein structures with linkage to metabolic pathways. Nucleic Acids Res (2007) 1.04
Breast cancer: when proteomics challenges biological complexity. Mol Cell Proteomics (2003) 1.02
SysPIMP: the web-based systematical platform for identifying human disease-related mutated sequences from mass spectrometry. Nucleic Acids Res (2008) 1.00
Pilot study of mutant ras peptide-based vaccine as an adjuvant treatment in pancreatic and colorectal cancers. Cancer Immunol Immunother (2008) 1.00
Microsomal epoxide hydrolase polymorphism and susceptibility to ovarian cancer. Cancer Lett (2002) 0.98
Candidate genes and single nucleotide polymorphisms (SNPs) in the study of human disease. Dis Markers (2001) 0.98
SNP@Domain: a web resource of single nucleotide polymorphisms (SNPs) within protein domain structures and sequences. Nucleic Acids Res (2006) 0.94
Do MSH6 mutations contribute to double primary cancers of the colorectum and endometrium? Hum Genet (2000) 0.92
MedRefSNP: a database of medically investigated SNPs. Hum Mutat (2009) 0.88
Mutation analysis of the MLH1, MSH2 and MSH6 genes in patients with double primary cancers of the colorectum and the endometrium: a population-based study in northern Sweden. Int J Cancer (2004) 0.86
Chasing mutations in the epidermal growth factor in lung cancer. N Engl J Med (2005) 0.85
Nonsynonymous SNPs: validation characteristics, derived allele frequency patterns, and suggestive evidence for natural selection. Hum Mutat (2006) 0.82
Peptide-based vaccination for colorectal cancer. Expert Opin Biol Ther (2005) 0.80
Somatic mutation databases as tools for molecular epidemiology and molecular pathology of cancer: proposed guidelines for improving data collection, distribution, and integration. Hum Mutat (2009) 0.79
The Genomes of Oryza sativa: a history of duplications. PLoS Biol (2005) 7.67
WEB-based GEne SeT AnaLysis Toolkit (WebGestalt): update 2013. Nucleic Acids Res (2013) 6.17
Characterization of the human heart mitochondrial proteome. Nat Biotechnol (2003) 5.66
Experimentally derived metastasis gene expression profile predicts recurrence and death in patients with colon cancer. Gastroenterology (2009) 4.08
Cohort Profile: The China Health and Nutrition Survey--monitoring and understanding socio-economic and health change in China, 1989-2011. Int J Epidemiol (2009) 4.08
Rapid growth of a hepatocellular carcinoma and the driving mutations revealed by cell-population genetic analysis of whole-genome data. Proc Natl Acad Sci U S A (2011) 3.80
Insulin-like growth factor-I receptor/human epidermal growth factor receptor 2 heterodimerization contributes to trastuzumab resistance of breast cancer cells. Cancer Res (2005) 3.78
Adult mouse epicardium modulates myocardial injury by secreting paracrine factors. J Clin Invest (2011) 2.99
The Drosophila BMP type II receptor Wishful Thinking regulates neuromuscular synapse morphology and function. Neuron (2002) 2.79
Drosophila spastin regulates synaptic microtubule networks and is required for normal motor function. PLoS Biol (2004) 2.10
Cytokine polymorphisms in the Th1/Th2 pathway and susceptibility to non-Hodgkin lymphoma. Blood (2006) 2.06
Polycomb repressive complex 2 regulates normal development of the mouse heart. Circ Res (2011) 2.05
Global analysis of protein damage by the lipid electrophile 4-hydroxy-2-nonenal. Mol Cell Proteomics (2008) 1.89
Eighteen year weight trajectories and metabolic markers of diabetes in modernising China. Diabetologia (2014) 1.81
Microarray analysis of chitin elicitation in Arabidopsis thaliana. Mol Plant Pathol (2002) 1.80
A randomized, multicenter study comparing the safety and efficacy of sodium phosphate tablets with 2L polyethylene glycol solution plus bisacodyl tablets for colon cleansing. Am J Gastroenterol (2007) 1.74
A novel antiapoptotic role for alpha1-antitrypsin in the prevention of pulmonary emphysema. Am J Respir Crit Care Med (2006) 1.72
Diet and nutrient intakes and risk of non-Hodgkin's lymphoma in Connecticut women. Am J Epidemiol (2004) 1.71
A specific protein substrate for a deubiquitinating enzyme: Liquid facets is the substrate of Fat facets. Genes Dev (2002) 1.66
Protein identification using customized protein sequence databases derived from RNA-Seq data. J Proteome Res (2011) 1.62
Community proteogenomics highlights microbial strain-variant protein expression within activated sludge performing enhanced biological phosphorus removal. ISME J (2008) 1.60
Prior medical conditions and medication use and risk of non-Hodgkin lymphoma in Connecticut United States women. Cancer Causes Control (2004) 1.59
Gene expression profiling in human preadipocytes and adipocytes by microarray analysis. J Nutr (2004) 1.57
Sodium intake from various time frames and incident hypertension among Chinese adults. Epidemiology (2013) 1.55
Understanding the patterns and trends of sodium intake, potassium intake, and sodium to potassium ratio and their effect on hypertension in China. Am J Clin Nutr (2013) 1.50
Oxidative damage to mitochondrial complex I due to peroxynitrite: identification of reactive tyrosines by mass spectrometry. J Biol Chem (2003) 1.50
Favorable prognosis of biallelic CEBPA gene mutations in acute myeloid leukemia patients: a meta-analysis. Eur J Haematol (2015) 1.48
The subunit composition of the human NADH dehydrogenase obtained by rapid one-step immunopurification. J Biol Chem (2003) 1.48
A comparison between ribo-minus RNA-sequencing and polyA-selected RNA-sequencing. Genomics (2010) 1.47
Polymorphisms in DNA repair genes and risk of non-Hodgkin lymphoma among women in Connecticut. Hum Genet (2006) 1.47
Supervised principal component analysis for gene set enrichment of microarray data with continuous or survival outcomes. Bioinformatics (2008) 1.45
Expanded coverage of the human heart mitochondrial proteome using multidimensional liquid chromatography coupled with tandem mass spectrometry. J Proteome Res (2004) 1.44
Steps to ensure accuracy in genotype and SNP calling from Illumina sequencing data. BMC Genomics (2012) 1.44
Distinct transcriptomes define rostral and caudal serotonin neurons. J Neurosci (2010) 1.43
Retrograde Gbb signaling through the Bmp type 2 receptor wishful thinking regulates systemic FMRFa expression in Drosophila. Development (2003) 1.42
An integrated approach for the analysis of biological pathways using mixed models. PLoS Genet (2008) 1.40
Screening active anti-breast cancer compounds from Cortex Magnolia officinalis by 2D LC-MS. J Sep Sci (2013) 1.39
Environmental adaptation: genomic analysis of the piezotolerant and psychrotolerant deep-sea iron reducing bacterium Shewanella piezotolerans WP3. PLoS One (2008) 1.38
A bioinformatics workflow for variant peptide detection in shotgun proteomics. Mol Cell Proteomics (2011) 1.34
Co-expression module analysis reveals biological processes, genomic gain, and regulatory mechanisms associated with breast cancer progression. BMC Syst Biol (2010) 1.33
Recombinant T cell receptor ligand treats experimental stroke. Stroke (2009) 1.33
Mechanism of evenness interrupted (Evi)-exosome release at synaptic boutons. J Biol Chem (2012) 1.32
A genetic mosaic approach for neural circuit mapping in Drosophila. Proc Natl Acad Sci U S A (2010) 1.31
Impact of phenolic substrate and growth temperature on the Arthrobacter chlorophenolicus proteome. J Proteome Res (2009) 1.31
Alcohol use and risk of non-Hodgkin's lymphoma among Connecticut women (United States). Cancer Causes Control (2003) 1.26
Trends in Chinese snacking behaviors and patterns and the social-demographic role between 1991 and 2009. Asia Pac J Clin Nutr (2012) 1.26
Autologous cytokine-induced killer cell therapy in clinical trial phase I is safe in patients with primary hepatocellular carcinoma. World J Gastroenterol (2004) 1.25
SiO2 nanoparticles induce cytotoxicity and protein expression alteration in HaCaT cells. Part Fibre Toxicol (2010) 1.24
A drosophila model for amyotrophic lateral sclerosis reveals motor neuron damage by human SOD1. J Biol Chem (2008) 1.23
A putative exonic splicing polymorphism in the BCL6 gene and the risk of non-Hodgkin lymphoma. J Natl Cancer Inst (2005) 1.20
Network-assisted protein identification and data interpretation in shotgun proteomics. Mol Syst Biol (2009) 1.19
Network analysis of the focal adhesion to invadopodia transition identifies a PI3K-PKCα invasive signaling axis. Sci Signal (2012) 1.19
Complete genome sequence of the metabolically versatile halophilic archaeon Haloferax mediterranei, a poly(3-hydroxybutyrate-co-3-hydroxyvalerate) producer. J Bacteriol (2012) 1.19
AP180 maintains the distribution of synaptic and vesicle proteins in the nerve terminal and indirectly regulates the efficacy of Ca2+-triggered exocytosis. J Neurophysiol (2005) 1.18
GLAD4U: deriving and prioritizing gene lists from PubMed literature. BMC Genomics (2012) 1.17
A network-based gene expression signature informs prognosis and treatment for colorectal cancer patients. PLoS One (2012) 1.16
Abundance and diversity of tetracycline resistance genes in soils adjacent to representative swine feedlots in China. Environ Sci Technol (2010) 1.15
hVAPB, the causative gene of a heterogeneous group of motor neuron diseases in humans, is functionally interchangeable with its Drosophila homologue DVAP-33A at the neuromuscular junction. Hum Mol Genet (2007) 1.15
Two new species and one new country record of Protaphorura Absolon, 1901 (Collembola: Onychiuridae) from northeast China. Zootaxa (2013) 1.14
customProDB: an R package to generate customized protein databases from RNA-Seq data for proteomics search. Bioinformatics (2013) 1.14
Alkylation damage by lipid electrophiles targets functional protein systems. Mol Cell Proteomics (2014) 1.13
Characterization of anaerobic catabolism of p-coumarate in Rhodopseudomonas palustris by integrating transcriptomics and quantitative proteomics. Mol Cell Proteomics (2007) 1.13
NetGestalt: integrating multidimensional omics data over biological networks. Nat Methods (2013) 1.13
An alternative strategy to determine the mitochondrial proteome using sucrose gradient fractionation and 1D PAGE on highly purified human heart mitochondria. J Proteome Res (2003) 1.12
Interdisciplinary dialogue for education, collaboration, and innovation: intelligent Biology and Medicine in and beyond 2013. BMC Genomics (2013) 1.11
Discordant risk: overweight and cardiometabolic risk in Chinese adults. Obesity (Silver Spring) (2013) 1.09
Retrograde signaling that regulates synaptic development and function at the Drosophila neuromuscular junction. Int Rev Neurobiol (2006) 1.09
Antitumor activities of human autologous cytokine-induced killer (CIK) cells against hepatocellular carcinoma cells in vitro and in vivo. World J Gastroenterol (2002) 1.09
Myocardial edema should be stratified according to the state of cardiomyocytes within the ischemic region. J Am Coll Cardiol (2015) 1.08
Integrative genomics analysis identifies candidate drivers at 3q26-29 amplicon in squamous cell carcinoma of the lung. Clin Cancer Res (2013) 1.08
Modification of a hydrophobic layer by a point mutation in syntaxin 1A regulates the rate of synaptic vesicle fusion. PLoS Biol (2007) 1.07
On-demand information retrieval in sensor networks with localised query and energy-balanced data collection. Sensors (Basel) (2010) 1.07
Analyzing proteomes and protein function using graphical comparative analysis of tandem mass spectrometry results. Mol Cell Proteomics (2006) 1.07
Safety and colon-cleansing efficacy of a new residue-free formulation of sodium phosphate tablets. Am J Gastroenterol (2006) 1.07
Protective immunity induced by Toxoplasma gondii rhoptry protein 16 against toxoplasmosis in mice. Clin Vaccine Immunol (2010) 1.06
BIGpre: a quality assessment package for next-generation sequencing data. Genomics Proteomics Bioinformatics (2011) 1.06
Degradation mechanism and control of silk fibroin. Biomacromolecules (2011) 1.06
Identification of human bocaviruses in the cerebrospinal fluid of children hospitalized with encephalitis in China. J Clin Virol (2013) 1.06
De novo centromere formation on a chromosome fragment in maize. Proc Natl Acad Sci U S A (2013) 1.05
Release of heat shock protein 70 and the effects of extracellular heat shock protein 70 on the production of IL-10 in fibroblast-like synoviocytes. Cell Stress Chaperones (2008) 1.05
A unified mixed effects model for gene set analysis of time course microarray experiments. Stat Appl Genet Mol Biol (2009) 1.05
Mir-208 promotes cell proliferation by repressing SOX6 expression in human esophageal squamous cell carcinoma. J Transl Med (2014) 1.05
T-cell clonality analysis in biopsy specimens from two different skin sites shows high specificity in the diagnosis of patients with suggested mycosis fungoides. J Am Acad Dermatol (2007) 1.04
Menstrual and reproductive factors and risk of non-Hodgkin's lymphoma among Connecticut women. Am J Epidemiol (2004) 1.04
Shwachman-Bodian Diamond syndrome is a multi-functional protein implicated in cellular stress responses. Hum Mol Genet (2009) 1.02
Exploring the relationship between vegetation spectra and eco-geo-environmental conditions in karst region, Southwest China. Environ Monit Assess (2010) 1.02
Structural and functional characterization of a highly specific serpin in the insect innate immunity. J Biol Chem (2010) 1.01
Proteomic consequences of a single gene mutation in a colorectal cancer model. J Proteome Res (2011) 1.01
Genomics in 2012: challenges and opportunities in the next generation sequencing era. BMC Genomics (2012) 1.01
Advances in systems biology: computational algorithms and applications. BMC Syst Biol (2012) 1.00
Drosophila Neto is essential for clustering glutamate receptors at the neuromuscular junction. Genes Dev (2012) 1.00
Childhood asthma in Beijing, China: a population-based case-control study. Am J Epidemiol (2002) 1.00
Sandwich-type immunosensors and immunoassays exploiting nanostructure labels: A review. Anal Chim Acta (2012) 1.00
[The trend analysis of overweight and obesity in Chinese students during 1985 - 2010]. Zhonghua Yu Fang Yi Xue Za Zhi (2012) 1.00
Computational, integrative, and comparative methods for the elucidation of genetic coexpression networks. J Biomed Biotechnol (2005) 0.99
Elucidation of the hrp clusters of Xanthomonas oryzae pv. oryzicola that control the hypersensitive response in nonhost tobacco and pathogenicity in susceptible host rice. Appl Environ Microbiol (2006) 0.99
Sequential azacitidine plus lenalidomide combination for elderly patients with untreated acute myeloid leukemia. Haematologica (2012) 0.99
Relating protein adduction to gene expression changes: a systems approach. Mol Biosyst (2011) 0.99
Ultraviolet radiation exposure and risk of non-Hodgkin's lymphoma. Am J Epidemiol (2007) 0.99
Silk self-assembly mechanisms and control from thermodynamics to kinetics. Biomacromolecules (2012) 0.99