Analysis of 60 reported glioma risk SNPs replicates published GWAS findings but fails to replicate associations from published candidate-gene studies.

PubWeight™: 1.13‹?› | Rank: Top 10%

🔗 View Article (PMC 3670948)

Published in Genet Epidemiol on December 31, 2012

Authors

Kyle M Walsh1, Erik Anderson, Helen M Hansen, Paul A Decker, Matt L Kosel, Thomas Kollmeyer, Terri Rice, Shichun Zheng, Yuanyuan Xiao, Jeffrey S Chang, Lucie S McCoy, Paige M Bracci, Joe L Wiemels, Alexander R Pico, Ivan Smirnov, Daniel H Lachance, Hugues Sicotte, Jeanette E Eckel-Passow, John K Wiencke, Robert B Jenkins, Margaret R Wrensch

Author Affiliations

1: Department of Neurological Surgery, University of California, San Francisco, San Francisco, CA 94143, USA. Kyle.Walsh@ucsf.edu

Articles citing this

The epidemiology of glioma in adults: a "state of the science" review. Neuro Oncol (2014) 2.63

Variants near TERT and TERC influencing telomere length are associated with high-grade glioma risk. Nat Genet (2014) 1.63

Genetic variants in telomerase-related genes are associated with an older age at diagnosis in glioma patients: evidence for distinct pathways of gliomagenesis. Neuro Oncol (2013) 1.11

The Fourth Law of Behavior Genetics. Curr Dir Psychol Sci (2015) 1.03

Telomere maintenance and the etiology of adult glioma. Neuro Oncol (2015) 0.97

Survival and low-grade glioma: the emergence of genetic information. Neurosurg Focus (2015) 0.91

Association between DNA repair gene polymorphisms and risk of glioma: a systematic review and meta-analysis. Neuro Oncol (2014) 0.91

Immune-related conditions and subsequent risk of brain cancer in a cohort of 4.5 million male US veterans. Br J Cancer (2014) 0.86

A Heritable Missense Polymorphism in CDKN2A Confers Strong Risk of Childhood Acute Lymphoblastic Leukemia and Is Preferentially Selected during Clonal Evolution. Cancer Res (2015) 0.86

Understanding inherited genetic risk of adult glioma - a review. Neurooncol Pract (2015) 0.79

Management of diffuse low-grade gliomas in adults - use of molecular diagnostics. Nat Rev Neurol (2017) 0.77

From GWAS risk foci to glioma molecular subclass. Neuro Oncol (2013) 0.76

Further Confirmation of Germline Glioma Risk Variant rs78378222 in TP53 and Its Implication in Tumor Tissues via Integrative Analysis of TCGA Data. Hum Mutat (2015) 0.76

Genetic variants associated with mosaic Y chromosome loss highlight cell cycle genes and overlap with cancer susceptibility. Nat Genet (2017) 0.75

CCDC26 rs4295627 polymorphism and glioma risk: a meta-analysis. Int J Clin Exp Med (2015) 0.75

Whole exome-wide association study identifies a missense variant in SLC2A4RG associated with glioblastoma risk. Am J Cancer Res (2017) 0.75

Articles cited by this

PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet (2007) 209.92

Potential etiologic and functional implications of genome-wide association loci for human diseases and traits. Proc Natl Acad Sci U S A (2009) 54.68

IDH1 and IDH2 mutations in gliomas. N Engl J Med (2009) 32.41

Rare variants create synthetic genome-wide associations. PLoS Biol (2010) 14.43

Type and frequency of IDH1 and IDH2 mutations are related to astrocytic and oligodendroglial differentiation and age: a study of 1,010 diffuse gliomas. Acta Neuropathol (2009) 7.73

Genome-wide association study identifies five susceptibility loci for glioma. Nat Genet (2009) 7.62

Increased expression of the epidermal growth factor receptor gene in malignant gliomas is invariably associated with gene amplification. Proc Natl Acad Sci U S A (1987) 7.12

Variants in the CDKN2B and RTEL1 regions are associated with high-grade glioma susceptibility. Nat Genet (2009) 5.13

DNA methylation, isocitrate dehydrogenase mutation, and survival in glioma. J Natl Cancer Inst (2010) 2.87

A germline variant in the TP53 polyadenylation signal confers cancer susceptibility. Nat Genet (2011) 2.43

Polymorphisms associated with asthma are inversely related to glioblastoma multiforme. Cancer Res (2005) 2.11

Chromosome 7p11.2 (EGFR) variation influences glioma risk. Hum Mol Genet (2011) 1.83

Distinct germ line polymorphisms underlie glioma morphologic heterogeneity. Cancer Genet (2011) 1.77

A low-frequency variant at 8q24.21 is strongly associated with risk of oligodendroglial tumors and astrocytomas with IDH1 or IDH2 mutation. Nat Genet (2012) 1.73

Pathway analysis of single-nucleotide polymorphisms potentially associated with glioblastoma multiforme susceptibility using random forests. Cancer Epidemiol Biomarkers Prev (2008) 1.56

Association and interactions between DNA repair gene polymorphisms and adult glioma. Cancer Epidemiol Biomarkers Prev (2009) 1.51

Isocitrate dehydrogenase 1 and 2 mutations in cholangiocarcinoma. Hum Pathol (2012) 1.51

Molecular features of adult glioma associated with patient race/ethnicity, age, and a polymorphism in O6-methylguanine-DNA-methyltransferase. Cancer Epidemiol Biomarkers Prev (2005) 1.44

Association of an ERCC1 polymorphism with adult-onset glioma. Cancer Epidemiol Biomarkers Prev (2000) 1.43

GLIOGENE an International Consortium to Understand Familial Glioma. Cancer Epidemiol Biomarkers Prev (2007) 1.42

Tagging SNPs in non-homologous end-joining pathway genes and risk of glioma. Carcinogenesis (2007) 1.30

Polymorphisms of LIG4 and XRCC4 involved in the NHEJ pathway interact to modify risk of glioma. Hum Mutat (2008) 1.26

Allergy-related polymorphisms influence glioma status and serum IgE levels. Cancer Epidemiol Biomarkers Prev (2007) 1.22

ERCC1 and ERCC2 polymorphisms and adult glioma. Neuro Oncol (2005) 1.19

Comprehensive analysis of the role of DNA repair gene polymorphisms on risk of glioma. Hum Mol Genet (2007) 1.19

Inherited variation in immune genes and pathways and glioblastoma risk. Carcinogenesis (2010) 1.17

Polymorphisms in apoptosis and cell cycle control genes and risk of brain tumors in adults. Cancer Epidemiol Biomarkers Prev (2007) 1.17

Polymorphisms in GLTSCR1 and ERCC2 are associated with the development of oligodendrogliomas. Cancer (2005) 1.16

DNA repair polymorphisms XRCC1 and MGMT and risk of adult gliomas. Neuroepidemiology (2007) 1.15

A polymorphism of microRNA196a genome region was associated with decreased risk of glioma in Chinese population. J Cancer Res Clin Oncol (2010) 1.13

Single-nucleotide polymorphisms in selected cytokine genes and risk of adult glioma. Carcinogenesis (2007) 1.12

An international case-control study of interleukin-4Ralpha, interleukin-13, and cyclooxygenase-2 polymorphisms and glioblastoma risk. Cancer Epidemiol Biomarkers Prev (2007) 1.09

The common D302H variant of CASP8 is associated with risk of glioma. Cancer Epidemiol Biomarkers Prev (2008) 1.02

Functional polymorphisms in folate metabolism genes influence the risk of meningioma and glioma. Cancer Epidemiol Biomarkers Prev (2008) 0.97

Associations between ERCC2 polymorphisms and gliomas. Cancer Epidemiol Biomarkers Prev (2001) 0.97

The methionine synthase polymorphism c.2756A>G alters susceptibility to glioblastoma multiforme. Cancer Epidemiol Biomarkers Prev (2006) 0.87

Single nucleotide polymorphisms in IL-4Ra, IL-13 and STAT6 genes occurs in brain glioma. Front Biosci (Elite Ed) (2011) 0.86

Association between EGF +61 G/A and glioma risk in a Chinese population. BMC Cancer (2010) 0.85

Allergy and glioma risk: test of association by genotype. Int J Cancer (2010) 0.83

Articles by these authors

Trastuzumab plus adjuvant chemotherapy for operable HER2-positive breast cancer. N Engl J Med (2005) 33.60

Integration of biological networks and gene expression data using Cytoscape. Nat Protoc (2007) 27.10

Recommendations for human epidermal growth factor receptor 2 testing in breast cancer: American Society of Clinical Oncology/College of American Pathologists clinical practice guideline update. J Clin Oncol (2013) 12.57

DNA methylation arrays as surrogate measures of cell mixture distribution. BMC Bioinformatics (2012) 9.31

Aging and environmental exposures alter tissue-specific DNA methylation dependent upon CpG island context. PLoS Genet (2009) 7.07

BubR1 insufficiency causes early onset of aging-associated phenotypes and infertility in mice. Nat Genet (2004) 6.85

A travel guide to Cytoscape plugins. Nat Methods (2012) 6.53

Randomized trial of mediastinal lymph node sampling versus complete lymphadenectomy during pulmonary resection in the patient with N0 or N1 (less than hilar) non-small cell carcinoma: results of the American College of Surgery Oncology Group Z0030 Trial. J Thorac Cardiovasc Surg (2011) 5.14

Genome-wide association study identifies variants in the ABO locus associated with susceptibility to pancreatic cancer. Nat Genet (2009) 5.14

Variants in the CDKN2B and RTEL1 regions are associated with high-grade glioma susceptibility. Nat Genet (2009) 5.13

Glioma Groups Based on 1p/19q, IDH, and TERT Promoter Mutations in Tumors. N Engl J Med (2015) 5.03

GenMAPP 2: new features and resources for pathway analysis. BMC Bioinformatics (2007) 4.97

A genome-wide association study identifies pancreatic cancer susceptibility loci on chromosomes 13q22.1, 1q32.1 and 5p15.33. Nat Genet (2010) 4.89

WikiPathways: building research communities on biological pathways. Nucleic Acids Res (2011) 4.78

SNP500Cancer: a public resource for sequence validation, assay development, and frequency analysis for genetic variation in candidate genes. Nucleic Acids Res (2006) 4.63

HER2 testing by local, central, and reference laboratories in specimens from the North Central Cancer Treatment Group N9831 intergroup adjuvant trial. J Clin Oncol (2006) 4.55

Presenting and exploring biological pathways with PathVisio. BMC Bioinformatics (2008) 4.34

Dynamic and coordinated epigenetic regulation of developmental transitions in the cardiac lineage. Cell (2012) 4.22

Genetic variation in TNF and IL10 and risk of non-Hodgkin lymphoma: a report from the InterLymph Consortium. Lancet Oncol (2006) 4.13

Model-based clustering of DNA methylation array data: a recursive-partitioning algorithm for high-dimensional data arising as a mixture of beta distributions. BMC Bioinformatics (2008) 3.89

Autoimmune disorders and risk of non-Hodgkin lymphoma subtypes: a pooled analysis within the InterLymph Consortium. Blood (2008) 3.81

Detectable clonal mosaicism and its relationship to aging and cancer. Nat Genet (2012) 3.69

A multigene predictor of outcome in glioblastoma. Neuro Oncol (2009) 3.57

Phase II trial of temsirolimus (CCI-779) in recurrent glioblastoma multiforme: a North Central Cancer Treatment Group Study. J Clin Oncol (2005) 3.50

The long noncoding RNA SChLAP1 promotes aggressive prostate cancer and antagonizes the SWI/SNF complex. Nat Genet (2013) 3.39

Concordance between local and central laboratory HER2 testing in the breast intergroup trial N9831. J Natl Cancer Inst (2002) 3.34

Nuclear MYC protein overexpression is an early alteration in human prostate carcinogenesis. Mod Pathol (2008) 3.18

Replication of lung cancer susceptibility loci at chromosomes 15q25, 5p15, and 6p21: a pooled analysis from the International Lung Cancer Consortium. J Natl Cancer Inst (2010) 3.18

Are airflow obstruction and radiographic evidence of emphysema risk factors for lung cancer? A nested case-control study using quantitative emphysema analysis. Chest (2010) 3.13

Integrated array-comparative genomic hybridization and expression array profiles identify clinically relevant molecular subtypes of glioblastoma. Cancer Res (2005) 3.10

The landscape of recombination in African Americans. Nature (2011) 3.06

Prospective evaluation of clonal evolution during long-term follow-up of patients with untreated early-stage chronic lymphocytic leukemia. J Clin Oncol (2006) 3.06

Structure of the human BK channel Ca2+-activation apparatus at 3.0 A resolution. Science (2010) 3.03

Sequential versus concurrent trastuzumab in adjuvant chemotherapy for breast cancer. J Clin Oncol (2011) 3.02

Genetic heterogeneity in HER2 testing in breast cancer: panel summary and guidelines. Arch Pathol Lab Med (2009) 2.97

DNA methylation, isocitrate dehydrogenase mutation, and survival in glioma. J Natl Cancer Inst (2010) 2.87

Tumor necrosis factor (TNF) and lymphotoxin-alpha (LTA) polymorphisms and risk of non-Hodgkin lymphoma in the InterLymph Consortium. Am J Epidemiol (2010) 2.86

Genetic variants at 6p21.33 are associated with susceptibility to follicular lymphoma. Nat Genet (2009) 2.73

The epidemiology of glioma in adults: a "state of the science" review. Neuro Oncol (2014) 2.63

The Human Epigenome Browser at Washington University. Nat Methods (2011) 2.62

Pulmonary hypertension in patients with idiopathic pulmonary fibrosis. Chest (2005) 2.60

Ventriculoperitoneal shunt complications in California: 1990 to 2000. Neurosurgery (2007) 2.55

Recommendations for human epidermal growth factor receptor 2 testing in breast cancer: American Society of Clinical Oncology/College of American Pathologists clinical practice guideline update. Arch Pathol Lab Med (2013) 2.54

Population- and community-based recruitment of African Americans and Latinos: the San Francisco Bay Area Lung Cancer Study. Am J Epidemiol (2003) 2.52

HER2 and chromosome 17 effect on patient outcome in the N9831 adjuvant trastuzumab trial. J Clin Oncol (2010) 2.49

Genetics of adult glioma. Cancer Genet (2012) 2.48

A germline variant in the TP53 polyadenylation signal confers cancer susceptibility. Nat Genet (2011) 2.43

Benefit from procarbazine, lomustine, and vincristine in oligodendroglial tumors is associated with mutation of IDH. J Clin Oncol (2014) 2.42

Genome-wide association study of follicular lymphoma identifies a risk locus at 6p21.32. Nat Genet (2010) 2.37

Sun exposure and melanoma risk at different latitudes: a pooled analysis of 5700 cases and 7216 controls. Int J Epidemiol (2009) 2.32

Discovery and validation of a prostate cancer genomic classifier that predicts early metastasis following radical prostatectomy. PLoS One (2013) 2.31

Video-assisted thoracic surgery versus open lobectomy for lung cancer: a secondary analysis of data from the American College of Surgeons Oncology Group Z0030 randomized clinical trial. J Thorac Cardiovasc Surg (2010) 2.31

Complex sleep apnea syndrome: is it a unique clinical syndrome? Sleep (2006) 2.27

Comparative analyses of gene copy number and mRNA expression in glioblastoma multiforme tumors and xenografts. Neuro Oncol (2009) 2.23

Treatment of stage I lung cancer in high-risk and inoperable patients: comparison of prospective clinical trials using stereotactic body radiotherapy (RTOG 0236), sublobar resection (ACOSOG Z4032), and radiofrequency ablation (ACOSOG Z4033). J Thorac Cardiovasc Surg (2012) 2.22

Mining biological pathways using WikiPathways web services. PLoS One (2009) 2.17

Integrated analysis of gene expression, CpG island methylation, and gene copy number in breast cancer cells by deep sequencing. PLoS One (2011) 2.16

Impact of PTEN protein expression on benefit from adjuvant trastuzumab in early-stage human epidermal growth factor receptor 2-positive breast cancer in the North Central Cancer Treatment Group N9831 trial. J Clin Oncol (2013) 2.15

Family history of hematopoietic malignancies and risk of non-Hodgkin lymphoma (NHL): a pooled analysis of 10 211 cases and 11 905 controls from the International Lymphoma Epidemiology Consortium (InterLymph). Blood (2006) 2.15

Multiple sclerosis, brain radiotherapy, and risk of neurotoxicity: the Mayo Clinic experience. Int J Radiat Oncol Biol Phys (2006) 2.12

A tissue biomarker panel predicting systemic progression after PSA recurrence post-definitive prostate cancer therapy. PLoS One (2008) 2.09

Validation of a genomic classifier that predicts metastasis following radical prostatectomy in an at risk patient population. J Urol (2013) 2.07

The BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services. BMC Bioinformatics (2010) 2.03

Development and evaluation of BioScore: a biomarker panel to enhance prognostic algorithms for clear cell renal cell carcinoma. Cancer (2009) 2.00

Genome-wide association study of glioma and meta-analysis. Hum Genet (2012) 1.96