Your browser doesn't support javascript.
loading
Mostrar: 20 | 50 | 100
Resultados 1 - 19 de 19
Filtrar
1.
Clin Cancer Res ; 17(16): 5490-500, 2011 Aug 15.
Artigo em Inglês | MEDLINE | ID: mdl-21705454

RESUMO

PURPOSE: Cell-based approaches were used to identify genetic markers predictive of patients' risk for poor response prior to chemotherapy. EXPERIMENTAL DESIGN: We conducted genome-wide association studies (GWAS) to identify single-nucleotide polymorphisms (SNP) associated with cellular sensitivity to carboplatin through their effects on mRNA expression using International HapMap lymphoblastoid cell lines (LCL) and replicated them in additional LCLs. SNPs passing both stages of the cell-based study were tested for association with progression-free survival (PFS) in patients. Phase 1 validation was based on 377 ovarian cancer patients receiving at least four cycles of carboplatin and paclitaxel from the Australian Ovarian Cancer Study (AOCS). Positive associations were then assessed in phase 2 validation analysis of 1,326 patients from the Ovarian Cancer Association Consortium and The Cancer Genome Atlas. RESULTS: In the initial GWAS, 342 SNPs were associated with carboplatin-induced cytotoxicity, of which 18 unique SNPs were retained after assessing their association with gene expression. One SNP (rs1649942) was replicated in an independent LCL set (Bonferroni adjusted P < 0.05). It was found to be significantly associated with decreased PFS in phase 1 AOCS patients (P(per-allele) = 2 × 10(-2)), with a stronger effect in the subset of women with optimally debulked tumors (P(per-allele) = 4 × 10(-3)). rs1649942 was also associated with poorer overall survival in women with optimally debulked tumors (P(per-allele) = 9 × 10(-3)). However, this SNP was not significant in phase 2 validation analysis with patients from numerous cohorts. CONCLUSION: This study shows the potential of cell-based, genome-wide approaches to identify germline predictors of treatment outcome and highlights the need for extensive validation in patients to assess their clinical effect.


Assuntos
Carboplatina/uso terapêutico , Neoplasias Ovarianas/tratamento farmacológico , Neoplasias Ovarianas/genética , Polimorfismo de Nucleotídeo Único , Antineoplásicos/efeitos adversos , Antineoplásicos/uso terapêutico , Carboplatina/administração & dosagem , Carboplatina/efeitos adversos , Linhagem Celular , Linhagem Celular Tumoral , Feminino , Perfilação da Expressão Gênica , Regulação Neoplásica da Expressão Gênica , Genoma Humano/genética , Estudo de Associação Genômica Ampla/métodos , Humanos , Estimativa de Kaplan-Meier , Neoplasias Ovarianas/patologia , Prognóstico , Resultado do Tratamento
2.
Pharmacogenet Genomics ; 20(4): 269-73, 2010 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-20216476

RESUMO

We have developed Pharmacogenomics And Cell database (PACdb), a results database that makes available relationships between single nucleotide polymorphisms, gene expression, and cellular sensitivity to various drugs in cell-based models to help determine genetic variants associated with drug response. The current version also supports summary analysis on differentially expressed genes between the HapMap samples of European and African ancestry, as well as queries for summary information of correlations between gene expression and pharmacological phenotypes. At present, data generated on the following anticancer agents are included: carboplatin, cisplatin, etoposide, daunorubicin, and cytarabine (Ara-C). The database is also available to assist in the investigation of the effects of potential confounding variables (e.g. cell proliferation rate) in lymphoblastoid cell lines. PACdb will be regularly updated to include more drugs and new datasets (e.g. baseline microRNA levels). PACdb will be linked into PharmGKB to benefit the next wave of pharmacogenetic and pharmacogenomic discovery.


Assuntos
Bases de Dados Genéticas , Farmacogenética/estatística & dados numéricos , Processamento Alternativo , Linhagem Celular , Resistencia a Medicamentos Antineoplásicos/genética , Expressão Gênica , Estudos de Associação Genética , Humanos , Polimorfismo de Nucleotídeo Único
3.
Arch Intern Med ; 169(12): 1123-9, 2009 Jun 22.
Artigo em Inglês | MEDLINE | ID: mdl-19546413

RESUMO

BACKGROUND: Failing to inform a patient of an abnormal outpatient test result can be a serious error, but little is known about the frequency of such errors or the processes for managing results that may reduce errors. METHODS: We conducted a retrospective medical record review of 5434 randomly selected patients aged 50 to 69 years in 19 community-based and 4 academic medical center primary care practices. Primary care practice physicians were surveyed about their processes for managing test results, and individual physicians were notified of apparent failures to inform and asked whether they had informed the patient. Blinded reviewers calculated a "process score" ranging from 0 to 5 for each practice using survey responses. RESULTS: The rate of apparent failures to inform or to document informing the patient was 7.1% (135 failures divided by 1889 abnormal results), with a range of 0% to 26.2%. The mean process score was 3.8 (range, 0.9-5.0). In mixed-effects logistic regression, higher process scores were associated with lower failure rates (odds ratio, 0.68; P < .001). Use of a "partial electronic medical record" (paper-based progress notes and electronic test results or vice versa) was associated with higher failure rates compared with not having an electronic medical record (odds ratio, 1.92; P = .03) or with having an electronic medical record that included both progress notes and test results (odds ratio, 2.37; P = .007). CONCLUSIONS: Failures to inform patients or to document informing patients of abnormal outpatient test results are common; use of simple processes for managing results is associated with lower failure rates.


Assuntos
Técnicas de Laboratório Clínico/normas , Controle de Formulários e Registros/normas , Erros Médicos/normas , Avaliação de Resultados em Cuidados de Saúde/métodos , Pacientes Ambulatoriais , Gestão de Riscos/métodos , Idoso , Interpretação Estatística de Dados , Humanos , Erros Médicos/prevenção & controle , Pessoa de Meia-Idade , Estudos Retrospectivos , Estados Unidos
4.
Am J Epidemiol ; 170(3): 393-400, 2009 Aug 01.
Artigo em Inglês | MEDLINE | ID: mdl-19483188

RESUMO

With case-parent triads, one can estimate genotype relative risks by measuring the apparent overtransmission of susceptibility genotypes from parents to affected offspring. Results obtained using such designs, properly analyzed, resist both bias due to population structure and bias due to self-selection. Most diseases are not purely genetic, and environmental cofactors can also be important. In this paper, the authors describe how a polytomous logistic regression method previously developed for studying genetic effects on a quantitative trait can be used with case-parent data to study multiplicative gene-by-environment interaction. The idea is that if the joint effect of exposure and genotype on risk is submultiplicative or supermultiplicative, then, conditional on the parental genotypes, inheritance of a susceptibility genotype by affected offspring will appear to have been influenced by the offspring's exposure level. The authors' approach tolerates exposure-complicated genetic population structure, and simulations suggest power and Type I error rates comparable to those of competitors. With this approach, one can estimate the usual interaction parameters under a much less stringent assumption than gene-environment independence in the source population. Incompletely genotyped triads can contribute through an expectation-maximization algorithm. To illustrate, the authors consider polymorphisms in detoxification pathway genes and maternal smoking in relation to the birth defect oral cleft.


Assuntos
Fissura Palatina/genética , Exposição Ambiental/efeitos adversos , Genótipo , Modelos Genéticos , Pais , Efeitos Tardios da Exposição Pré-Natal , Fumar/efeitos adversos , Adulto , Algoritmos , Alelos , Estudos de Casos e Controles , Chicago/epidemiologia , Criança , Fissura Palatina/induzido quimicamente , Fissura Palatina/epidemiologia , Suscetibilidade a Doenças , Feminino , Regulação da Expressão Gênica , Humanos , Modelos Logísticos , Masculino , Computação Matemática , Gravidez , Análise de Regressão , Fatores de Risco
5.
Pharmacogenomics ; 10(4): 549-63, 2009 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-19374514

RESUMO

AIM: Folate is vital for cell growth and development through its important role in one-carbon metabolism - an essential process in the synthesis of amino acids and nucleic acids. Folate pathway genes have been considered as therapeutic targets of drugs for the treatment of cancer and other diseases. Racial and ethnic disparities of folate metabolism and outcome of antifolate therapies have been reported. In this study, we evaluate the genetic regulation for expression and alternative splicing of folate related genes in HapMap lymphoblastoid cell lines (LCLs) of individuals of European and African descent. MATERIALS & METHODS: Gene and exon level expression and alternative splicing of folate pathway genes were compared in LCLs derived from the Centre d'Etude du Polymorphisme Humain (CEPH) from Utah (CEU) and the Yoruba from Ibadan (YRI) using a permutation-based test. A genome-wide association study was performed to search for SNPs associated with folate pathway gene expressions and alternative splicing in the combined population samples. RESULTS: A total of 52 folate pathway genes were evaluated in the analysis of which 46 were expressed in the LCLs. There were 12 genes (26%) with differential gene-level expression and 23 genes (50%) with differential alternative splicing for exons or UTRs between the CEU and the YRI (permutation p

Assuntos
Processamento Alternativo , Ácido Fólico/biossíntese , Perfilação da Expressão Gênica , Polimorfismo de Nucleotídeo Único , Transdução de Sinais/genética , População Negra , Linhagem Celular , Ácido Fólico/genética , Humanos , População Branca
6.
Blood ; 113(10): 2145-53, 2009 Mar 05.
Artigo em Inglês | MEDLINE | ID: mdl-19109566

RESUMO

Cytarabine arabinoside (ara-C) is an antimetabolite used to treat hematologic malignancies. Resistance is a common reason for treatment failure with adverse side effects contributing to morbidity and mortality. Identification of genetic factors important in susceptibility to ara-C cytotoxicity may allow for individualization of treatment. We used an unbiased whole-genome approach using lymphoblastoid cell lines derived from persons of European (CEU) or African (YRI) ancestry to identify these genetic factors. We interrogated more than 2 million single nucleotide polymorphisms (SNPs) for association with susceptibility to ara-C and narrowed our focus by concentrating on SNPs that affected gene expression. We identified a unique pharmacogenetic signature consisting of 4 SNPs explaining 51% of the variability in sensitivity to ara-C among the CEU and 5 SNPs explaining 58% of the variation among the YRI. Population-specific signatures were secondary to either (1) polymorphic SNPs in one population but monomorphic in the other, or (2) significant associations of SNPs with cytotoxicity or gene expression in one population but not the other. We validated the gene expression-cytotoxicity relationship for a subset of genes in a separate group of lymphoblastoid cell lines. These unique genetic signatures comprise novel genes that can now be studied further in functional studies.


Assuntos
Antimetabólitos Antineoplásicos/farmacologia , Citarabina/farmacologia , Resistencia a Medicamentos Antineoplásicos/genética , Polimorfismo de Nucleotídeo Único , Área Sob a Curva , População Negra/genética , Western Blotting , Linhagem Celular , Proliferação de Células/efeitos dos fármacos , Desoxicitidina Quinase/genética , Feminino , Expressão Gênica/efeitos dos fármacos , Genótipo , Humanos , Masculino , Farmacogenética , Fenótipo , Reação em Cadeia da Polimerase Via Transcriptase Reversa , População Branca/genética
7.
Hum Genet ; 125(2): 173-80, 2009 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-19089452

RESUMO

Etoposide is routinely used in combination-based chemotherapy for testicular cancer and small-cell lung cancer; however, myelosuppression, therapy-related leukemia and neurotoxicity limit its utility. To determine the genetic contribution to cellular sensitivity to etoposide, we evaluated cell growth inhibition in Centre d' Etude du Polymorphisme Humain lymphoblastoid cell lines from 24 multi-generational pedigrees (321 samples) following treatment with 0.02-2.5 microM etoposide for 72 h. Heritability analysis showed that genetic variation contributes significantly to the cytotoxic phenotypes (h (2) = 0.17-0.25, P = 4.9 x 10(-5)-7.3 x 10(-3)). Whole genome linkage scans uncovered 8 regions with peak LOD scores ranging from 1.57 to 2.55, with the most significant signals being found on chromosome 5 (LOD = 2.55) and chromosome 6 (LOD = 2.52). Linkage-directed association was performed on a subset of HapMap samples within the pedigrees to find 22 SNPs significantly associated with etoposide cytotoxicity at one or more treatment concentrations. UVRAG, a DNA repair gene, SEMA5A, SLC7A6 and PRMT7 are implicated from these unbiased studies. Our findings suggest that susceptibility to etoposide-induced cytotoxicity is heritable and using an integrated genomics approach we identified both genomic regions and SNPs associated with the cytotoxic phenotypes.


Assuntos
Antineoplásicos Fitogênicos/farmacologia , Proliferação de Células/efeitos dos fármacos , Etoposídeo/farmacologia , Ligação Genética , Variação Genética , Genômica/métodos , Padrões de Herança/genética , Sistemas de Transporte de Aminoácidos Básicos/genética , Linhagem Celular , Humanos , Escore Lod , Proteínas de Membrana/genética , Metiltransferases/genética , Proteínas do Tecido Nervoso/genética , Linhagem , Farmacogenética , Proteína-Arginina N-Metiltransferases , Semaforinas , Proteínas Supressoras de Tumor/genética
8.
Mol Cancer Ther ; 7(9): 3038-46, 2008 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-18765826

RESUMO

To gain a better understanding of the genetic variants associated with carboplatin-induced cytotoxicity in individuals of African descent, we present a step-wise approach integrating genotypes, gene expression, and sensitivity of HapMap cell lines to carboplatin. Cell lines derived from 30 trios of African descent (YRI) were used to develop a preclinical model to identify genetic variants and gene expression that contribute to carboplatin-induced cytotoxicity. Cytotoxicity was determined as cell growth inhibition at increasing concentrations of carboplatin for 72 h. Gene expression of 89 HapMap YRI cell lines was determined using the Affymetrix GeneChip Human Exon 1.0 ST Array. Single nucleotide polymorphism genotype and the percent survival at different treatment concentrations along with carboplatin IC50 were linked through whole genome association. A second association test was done between single nucleotide polymorphism genotype and gene expression, and linear regression was then used to capture those genes whose expression correlated to drug sensitivity phenotypes. This approach allows us to identify genetic variants that significantly associate with sensitivity to the cytotoxic effects of carboplatin through their effect on gene expression. We found a gene (GPC5) whose expression is important in all carboplatin treatment concentrations as well as many genes unique to either low (e.g., MAPK1) or high (e.g., BRAF, MYC, and BCL2L1) concentrations of drug. Our whole genome approach enables us to evaluate the contribution of genetic and gene expression variation to a wide range of cellular phenotypes. The identification of concentration specific genetic signatures allows for potential integration of pharmacokinetics, pharmacodynamics, and pharmacogenetics in tailoring chemotherapy.


Assuntos
População Negra/genética , Carboplatina/farmacologia , Variação Genética , Morte Celular/efeitos dos fármacos , Linhagem Celular , Proliferação de Células/efeitos dos fármacos , Sobrevivência Celular/efeitos dos fármacos , Regulação da Expressão Gênica/efeitos dos fármacos , Variação Genética/efeitos dos fármacos , Genótipo , Glipicanas/genética , Humanos , Desequilíbrio de Ligação/genética , Proteína Quinase 1 Ativada por Mitógeno/genética , Polimorfismo de Nucleotídeo Único/genética , Proteínas Proto-Oncogênicas B-raf/genética , Análise de Regressão
9.
Nat Genet ; 40(8): 955-62, 2008 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-18587394

RESUMO

Several risk factors for Crohn's disease have been identified in recent genome-wide association studies. To advance gene discovery further, we combined data from three studies on Crohn's disease (a total of 3,230 cases and 4,829 controls) and carried out replication in 3,664 independent cases with a mixture of population-based and family-based controls. The results strongly confirm 11 previously reported loci and provide genome-wide significant evidence for 21 additional loci, including the regions containing STAT3, JAK2, ICOSLG, CDKAL1 and ITLN1. The expanded molecular understanding of the basis of this disease offers promise for informed therapeutic development.


Assuntos
Doença de Crohn/genética , Predisposição Genética para Doença , Genoma Humano , Locos de Características Quantitativas , Humanos
10.
Cancer Res ; 68(9): 3161-8, 2008 May 01.
Artigo em Inglês | MEDLINE | ID: mdl-18451141

RESUMO

Identifying heritable genetic variants responsible for chemotherapeutic toxicities has been challenging due in part to its multigenic nature. To date, there is a paucity of data on genetic variants associated with patients experiencing severe myelosuppression or cardiac toxicity following treatment with daunorubicin. We present a genome-wide model using International HapMap cell lines that integrate genotype and gene expression to identify genetic variants that contribute to daunorubicin-induced cytotoxicity. A cell growth inhibition assay was used to measure variations in the cytotoxicity of daunorubicin. Gene expression was determined using the Affymetrix GeneChip Human Exon 1.0ST Array. Using sequential analysis, we evaluated the associations between genotype and cytotoxicity, those significant genotypes with gene expression and correlated gene expression of the identified candidates with cytotoxicity. A total of 26, 9, and 18 genetic variants were identified to contribute to daunorubicin-induced cytotoxicity through their effect on 16, 9, and 36 gene expressions in the combined, Centre d' Etude du Polymorphisme Humain (CEPH), and Yoruban populations, respectively. Using 50 non-HapMap CEPH cell lines, single nucleotide polymorphisms generated through our model predicted 29% of the overall variation in daunorubicin sensitivity and the expression of CYP1B1 was significantly correlated with sensitivity to daunorubicin. In the CEPH validation set, rs120525235 and rs3750518 were significant predictors of transformed daunorubicin IC(50) (P = 0.005 and P = 0.0008, respectively), and rs1551315 trends toward significance (P = 0.089). This unbiased method can be used to elucidate genetic variants contributing to a wide range of cellular phenotypes.


Assuntos
Daunorrubicina/uso terapêutico , Resistencia a Medicamentos Antineoplásicos/genética , Neoplasias/tratamento farmacológico , Neoplasias/genética , Polimorfismo de Nucleotídeo Único , Antibióticos Antineoplásicos/uso terapêutico , Hidrocarboneto de Aril Hidroxilases , Linhagem Celular Tumoral , Citocromo P-450 CYP1B1 , Sistema Enzimático do Citocromo P-450/genética , Ligação Genética , Predisposição Genética para Doença , Genótipo , Humanos , Concentração Inibidora 50
11.
Cancer Res ; 68(7): 2329-39, 2008 Apr 01.
Artigo em Inglês | MEDLINE | ID: mdl-18381440

RESUMO

E-cadherin loss is frequently associated with ovarian cancer metastasis. Given that adhesion to the abdominal peritoneum is the first step in ovarian cancer dissemination, we reasoned that down-regulation of E-cadherin would affect expression of cell matrix adhesion receptors. We show here that inhibition of E-cadherin in ovarian cancer cells causes up-regulation of alpha(5)-integrin protein expression and transcription. When E-cadherin was blocked, RMUG-S ovarian cancer cells were able to attach and invade more efficiently. This greater efficiency could, in turn, be inhibited both in vitro and in vivo with an alpha(5)beta(1)-integrin-blocking antibody. When E-cadherin is silenced, alpha(5)-integrin is up-regulated through activation of an epidermal growth factor receptor/FAK/Erk1-mitogen-activated protein kinase-dependent signaling pathway and not through the canonical E-cadherin/beta-catenin signaling pathway. In SKOV-3ip1 ovarian cancer xenografts, which express high levels of alpha(5)-integrin, i.p. treatment with an alpha(5)beta(1)-integrin antibody significantly reduced tumor burden, ascites, and number of metastasis and increased survival by an average of 12 days when compared with IgG treatment (P < 0.0005). alpha(5)-Integrin expression was detected by immunohistochemistry in 107 advanced stage ovarian cancers using a tissue microarray annotated with disease-specific patient follow-up. Ten of 107 tissues (9%) had alpha(5)-integrin overexpression, and 39% had some level of alpha(5)-integrin expression. The median survival for patients with high alpha(5)-integrin levels was 26 months versus 35 months for those with low integrin expression (P < 0.05). Taken together, we have identified alpha(5)-integrin up-regulation as a molecular mechanism by which E-cadherin loss promotes tumor progression, providing an explanation for how E-cadherin loss increases metastasis. Targeting this integrin could be a promising therapy for a subset of ovarian cancer patients.


Assuntos
Caderinas/antagonistas & inibidores , Integrina alfa5/metabolismo , Neoplasias Ovarianas/patologia , Neoplasias Peritoneais/secundário , Animais , Biomarcadores Tumorais/biossíntese , Biomarcadores Tumorais/metabolismo , Western Blotting , Caderinas/biossíntese , Caderinas/metabolismo , Adesão Celular/fisiologia , Feminino , Regulação Neoplásica da Expressão Gênica , Humanos , Integrina alfa5/biossíntese , Integrina alfa5/genética , Integrina alfa5beta1/metabolismo , Sistema de Sinalização das MAP Quinases , Camundongos , Camundongos Nus , Invasividade Neoplásica , Neoplasias Ovarianas/enzimologia , Neoplasias Ovarianas/genética , Neoplasias Ovarianas/metabolismo , Neoplasias Peritoneais/enzimologia , Neoplasias Peritoneais/metabolismo , Prognóstico , Transfecção
12.
Am J Hum Genet ; 81(3): 427-37, 2007 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-17701890

RESUMO

Cisplatin, a platinating agent commonly used to treat several cancers, is associated with nephrotoxicity, neurotoxicity, and ototoxicity, which has hindered its utility. To gain a better understanding of the genetic variants associated with cisplatin-induced toxicity, we present a stepwise approach integrating genotypes, gene expression, and sensitivity of HapMap cell lines to cisplatin. Cell lines derived from 30 trios of European descent (CEU) and 30 trios of African descent (YRI) were used to develop a preclinical model to identify genetic variants and gene expression that contribute to cisplatin-induced cytotoxicity in two different populations. Cytotoxicity was determined as cell-growth inhibition at increasing concentrations of cisplatin for 48 h. Gene expression in 176 HapMap cell lines (87 CEU and 89 YRI) was determined using the Affymetrix GeneChip Human Exon 1.0 ST Array. We identified six, two, and nine representative SNPs that contribute to cisplatin-induced cytotoxicity through their effects on 8, 2, and 16 gene expressions in the combined, Centre d'Etude du Polymorphisme Humain (CEPH), and Yoruban populations, respectively. These genetic variants contribute to 27%, 29%, and 45% of the overall variation in cell sensitivity to cisplatin in the combined, CEPH, and Yoruban populations, respectively. Our whole-genome approach can be used to elucidate the expression of quantitative trait loci contributing to a wide range of cellular phenotypes.


Assuntos
Antineoplásicos/toxicidade , Cisplatino/toxicidade , Genoma Humano , Locos de Características Quantitativas , População Negra/genética , Linhagem Celular , Expressão Gênica , Genótipo , Humanos , Concentração Inibidora 50 , Análise de Sequência com Séries de Oligonucleotídeos , Polimorfismo de Nucleotídeo Único , População Branca/genética
13.
Proc Natl Acad Sci U S A ; 104(27): 11400-5, 2007 Jul 03.
Artigo em Inglês | MEDLINE | ID: mdl-17600087

RESUMO

The early phases of carcinogenesis resemble embryonic development, often involving the reexpression of embryonic mesenchymal genes. The NCI60 panel of human tumor cell lines can genetically be subdivided into two superclusters (SCs) that correspond to CD95 Type I and II cells. SC1 cells are characterized by a mesenchymal and SC2 cells by an epithelial gene signature, suggesting that SC1 cells represent less differentiated, advanced stages of cancer. miRNAs are small 20- to 22-nucleotide-long noncoding RNAs that inhibit gene expression at the posttranscriptional level. By performing miRNA expression analysis on 10 Type I and 10 Type II cells, we have determined that SC1 cells express low and SC2 cells high levels of the miRNA let-7, respectively, suggesting that let-7 is a marker for less advanced cancers. Expression of the let-7 target high-mobility group A2 (HMGA2), an early embryonic gene, but not of classical epithelial or mesenchymal markers such as E-cadherin or vimentin, inversely correlated with let-7 expression in SC1 and SC2 cells. Using ovarian cancer as a model, we demonstrate that expression of let-7 and HMGA2 is a better predictor of prognosis than classical markers such as E-cadherin, vimentin, and Snail. These data identify loss of let-7 expression as a marker for less differentiated cancer.


Assuntos
Biomarcadores Tumorais/biossíntese , Biomarcadores Tumorais/genética , Transformação Celular Neoplásica/genética , Transformação Celular Neoplásica/patologia , Regulação Neoplásica da Expressão Gênica , MicroRNAs/biossíntese , MicroRNAs/genética , Neoplasias Ovarianas/patologia , Biomarcadores Tumorais/fisiologia , Diferenciação Celular/genética , Linhagem Celular , Linhagem Celular Tumoral , Progressão da Doença , Feminino , Proteína HMGA2/biossíntese , Proteína HMGA2/genética , Células HeLa , Humanos , MicroRNAs/fisiologia , Neoplasias Ovarianas/genética , Valor Preditivo dos Testes
14.
Proc Natl Acad Sci U S A ; 104(23): 9758-63, 2007 Jun 05.
Artigo em Inglês | MEDLINE | ID: mdl-17537913

RESUMO

Large interindividual variance has been observed in sensitivity to drugs. To comprehensively decipher the genetic contribution to these variations in drug susceptibility, we present a genome-wide model using human lymphoblastoid cell lines from the International HapMap consortium, of which extensive genotypic information is available, to identify genetic variants that contribute to chemotherapeutic agent-induced cytotoxicity. Our model integrated genotype, gene expression, and sensitivity of HapMap cell lines to drugs. Cell lines derived from 30 trios of European descent (Center d'Etude du Polymorphisme Humain population) and 30 trios of African descent (Yoruban population) were used. Cell growth inhibition at increasing concentrations of etoposide for 72 h was determined by using alamarBlue assay. Gene expression on 176 HapMap cell lines (87 Center d'Etude du Polymorphisme Humain population and 89 Yoruban population) was determined by using the Affymetrix GeneChip Human Exon 1.0ST Array. We evaluated associations between genotype and cytotoxicity, genotype and gene expression and correlated gene expression of the identified candidates with cytotoxicity. The analysis identified 63 genetic variants that contribute to etoposide-induced toxicity through their effect on gene expression. These include genes that may play a role in cancer (AGPAT2, IL1B, and WNT5B) and genes not yet known to be associated with sensitivity to etoposide. This unbiased method can be used to elucidate genetic variants contributing to a wide range of cellular phenotypes induced by chemotherapeutic agents.


Assuntos
Antineoplásicos Fitogênicos/toxicidade , Proliferação de Células/efeitos dos fármacos , Etoposídeo/toxicidade , Regulação da Expressão Gênica/efeitos dos fármacos , Variação Genética , Farmacogenética/métodos , População Negra/genética , Linhagem Celular , Humanos , Concentração Inibidora 50 , Modelos Lineares , Análise de Sequência com Séries de Oligonucleotídeos , Oncogenes/genética , Oxazinas , Polimorfismo de Nucleotídeo Único/genética , População Branca/genética , Xantenos
15.
Mol Cancer Ther ; 6(1): 31-6, 2007 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-17237264

RESUMO

Large interindividual variance is observed in both response and toxicity associated with chemotherapy. Our goal is to identify factors that contribute to chemotherapy-induced toxicity. To this end, we used EBV-transformed B-lymphoblastoid HapMap cell lines derived from 30 Yoruban trios (African descent) and 30 Centre d' Etude du Polymorphisme Humain (CEPH) trios (European descent) to evaluate population- and gender-specific differences in cytotoxicity of carboplatin, cisplatin, daunorubicin, and etoposide using a high-throughput, short-term cytotoxicity assay. The IC(50) was compared for population- and gender-specific differences for the four drugs. We observed large interindividual variance in IC(50) values for carboplatin, cisplatin, daunorubicin, and etoposide for both Yoruban and CEPH populations (range from 8- to 433-fold). Statistically significant differences in carboplatin and daunorubicin IC(50) were shown when comparing Yoruban cell lines (n = 89) to CEPH cell lines (n = 87; P = 0.002 and P = 0.029, respectively). This population difference in treatment induced cytotoxicity was not seen for either cisplatin or etoposide. In the Yoruban population, cell lines derived from females were less sensitive to platinating agents than males [median carboplatin IC(50), 29.1 versus 24.6 micromol/L (P = 0.012); median cisplatin IC(50), 7.0 versus 6.0 micromol/L (P = 0.020) in female and male, respectively]. This difference was not observed in the CEPH population. These results show that population and gender may affect risk for toxicities associated with certain chemotherapeutic agents.


Assuntos
Antineoplásicos/efeitos adversos , Antineoplásicos/farmacologia , População Negra , Caracteres Sexuais , População Branca , População Negra/genética , Morte Celular/efeitos dos fármacos , Linhagem Celular , Sobrevivência Celular/efeitos dos fármacos , Feminino , Humanos , Concentração Inibidora 50 , Masculino , Farmacogenética , População Branca/genética
16.
Science ; 314(5804): 1461-3, 2006 Dec 01.
Artigo em Inglês | MEDLINE | ID: mdl-17068223

RESUMO

The inflammatory bowel diseases Crohn's disease and ulcerative colitis are common, chronic disorders that cause abdominal pain, diarrhea, and gastrointestinal bleeding. To identify genetic factors that might contribute to these disorders, we performed a genome-wide association study. We found a highly significant association between Crohn's disease and the IL23R gene on chromosome 1p31, which encodes a subunit of the receptor for the proinflammatory cytokine interleukin-23. An uncommon coding variant (rs11209026, c.1142G>A, p.Arg381Gln) confers strong protection against Crohn's disease, and additional noncoding IL23R variants are independently associated. Replication studies confirmed IL23R associations in independent cohorts of patients with Crohn's disease or ulcerative colitis. These results and previous studies on the proinflammatory role of IL-23 prioritize this signaling pathway as a therapeutic target in inflammatory bowel disease.


Assuntos
Doença de Crohn/genética , Polimorfismo de Nucleotídeo Único , Receptores de Interleucina/genética , Alelos , Estudos de Casos e Controles , Cromossomos Humanos Par 1/genética , Estudos de Coortes , Colite Ulcerativa/genética , Marcadores Genéticos , Predisposição Genética para Doença , Testes Genéticos , Genoma Humano , Haplótipos , Humanos , Interleucina-23/metabolismo , Judeus/genética , Desequilíbrio de Ligação , Receptores de Interleucina/fisiologia , Transdução de Sinais
17.
J Allergy Clin Immunol ; 117(1): 119-26, 2006 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-16387594

RESUMO

BACKGROUND: A recent microarray study implicated arginase I (ARG1) and arginase II (ARG2) in mouse allergic asthma models and human asthma. OBJECTIVES: To examine the association between genetic variation in ARG1 and ARG2 and childhood asthma and atopy risk. METHODS: We enrolled 433 case-parent triads, consisting of patients with asthma 4 to 17 years old and their biologic parents, from the allergy clinic of a public hospital in Mexico City between 1998 and 2003. Atopy to 24 aeroallergens was determined by skin prick tests. We genotyped 4 single nucleotide polymorphisms (SNPs) of ARG1 and 4 SNPs of ARG2 with minor allele frequencies higher than 10% by using the TaqMan assay (Roche Molecular Systems, Pleasanton, Calif). RESULTS: ARG1 SNPs and haplotypes were not associated with asthma, but all 4 ARG1 SNPs were associated with the number of positive skin tests (P = .007-.018). Carrying 2 copies of minor alleles for either of 2 highly associated ARG2 SNPs was associated with a statistically significant increased relative risk (RR) of asthma (1.5, 95% CI = 1.1-2.1 for arg2s1; RR = 1.6, 95% CI = 1.1-2.3 for arg2s2). The association was slightly stronger among children with a smoking parent (arg2s1 RR = 2.1, 95% CI = 1.2 - 3.9 with a smoking parent; RR = 1.2, 95% CI = 0.8-1.9 without; interaction P = .025). Haplotype analyses reduced the sample size but supported the single SNP results. One ARG2 SNP was related to the number of positive skin tests (P = .027). CONCLUSION: Variation in arginase genes may contribute to asthma and atopy in children.


Assuntos
Arginase/genética , Asma/genética , Hipersensibilidade/genética , Polimorfismo de Nucleotídeo Único , Adolescente , Criança , Pré-Escolar , Feminino , Genótipo , Humanos , Masculino , Poluição por Fumaça de Tabaco
18.
Radiology ; 226(1): 153-60, 2003 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-12511684

RESUMO

PURPOSE: To determine effects of lesion type (calcification vs mass) and image processing on radiologist's performance for area under the receiver operating characteristic curve (AUC), sensitivity, and specificity for detection of masses and calcifications with digital mammography in women with mammographically dense breasts. MATERIALS AND METHODS: This study included 201 women who underwent digital mammography at seven U.S. and Canadian medical centers. Three image-processing algorithms were applied to the digital images, which were acquired with Fischer, General Electric, and Lorad digital mammography units. Eighteen readers participated in the reader study (six readers per algorithm). Baseline values for reader performance with screen-film mammograms were obtained through the additional interpretation of 179 screen-film mammograms. A repeated-measures analysis of covariance allowing unequal slopes was used in each of the nine analyses (AUC, sensitivity, and specificity for each of three machines). Bonferroni correction was used. RESULTS: Although lesion type did not affect the AUC or sensitivity for Fischer digital images, it did affect specificity (P =.0004). For the General Electric digital images, AUC, sensitivity, and specificity were not affected by lesion type. For Lorad digital images, the results strongly suggested that lesion type affected AUC and sensitivity (P <.0001). None of the three image-processing methods tested affected the AUC, sensitivity, or specificity for the Fischer, General Electric, or Lorad digital images. CONCLUSION: Findings in this study indicate that radiologist's interpretation accuracy in interpreting digital mammograms depends on lesion type. Interpretation accuracy was not influenced by the image-processing method.


Assuntos
Mama/patologia , Processamento de Imagem Assistida por Computador , Mamografia , Intensificação de Imagem Radiográfica , Área Sob a Curva , Feminino , Humanos , Sensibilidade e Especificidade
19.
Radiology ; 223(2): 483-8, 2002 May.
Artigo em Inglês | MEDLINE | ID: mdl-11997557

RESUMO

PURPOSE: To compare the speed and accuracy of the interpretations of digital mammograms by radiologists by using printed-film versus soft-copy display. MATERIALS AND METHODS: After being trained in interpretation of digital mammograms, eight radiologists interpreted 63 digital mammograms, all with old studies for comparison. All studies were interpreted by all readers in soft-copy and printed-film display, with interpretations of images in the same cases at least 1 month apart. Mammograms were interpreted in cases that included six biopsy-proved cancers and 20 biopsy-proved benign lesions, 20 cases of probably benign findings in patients who underwent 6-month follow-up, and 17 cases without apparent findings. Area under the receiver operating characteristic curve (A(z)), sensitivity, and specificity were calculated for soft-copy and printed-film display. RESULTS: There was no significant difference in the speed of interpretation, but interpretations with soft-copy display were slightly faster. The differences in A(z), sensitivity, and specificity were not significantly different; A(z) and sensitivity were slightly better for interpretations with printed film, and specificity was slightly better for interpretations with soft copy. CONCLUSION: Interpretation with soft-copy display is likely to be useful with digital mammography and is unlikely to significantly change accuracy or speed.


Assuntos
Doenças Mamárias/diagnóstico por imagem , Mamografia/métodos , Feminino , Humanos , Processamento de Imagem Assistida por Computador , Curva ROC , Intensificação de Imagem Radiográfica , Sistemas de Informação em Radiologia , Sensibilidade e Especificidade , Filme para Raios X
SELEÇÃO DE REFERÊNCIAS
DETALHE DA PESQUISA