Genomes and Genes
Affiliation: Fred Hutchinson Cancer Research Center
- A class of models for analyzing GeneChip gene expression analysis array dataWenhong Fan
Division of Public Health Sciences, Fred Hutchinson Cancer Research Center, 1100 Fairview Ave, N, Seattle, WA 98109, USA
BMC Genomics 6:16. 2005....
- A statistical method for predicting splice variants between two groups of samples using GeneChip expression array dataWenhong Fan
Division of Public Health Sciences, Fred Hutchinson Cancer Research Center, 1100 Fairview Ave N, Seattle, WA 98109, USA
Theor Biol Med Model 3:19. 2006..This additional capacity motivated us to develop a method to predict alternative splicing, taking advance of extensive repositories of GeneChip gene expression array data...
- Can a metastatic gene expression profile outperform tumor size as a predictor of occult lymph node metastasis in oral cancer patients?Eduardo Mendez
Department of Otolaryngology Head and Neck Surgery, University of Washington, Seattle, Washington, USA
Clin Cancer Res 17:2466-73. 2011..To determine the differential gene expression between oral squamous cell carcinoma (OSCC) with and without metastasis to cervical lymph nodes and to assess prediction of nodal metastasis by using molecular features...
- Integrative analysis of DNA copy number and gene expression in metastatic oral squamous cell carcinoma identifies genes associated with poor survivalChang Xu
Department of Otolaryngology Head and Neck Surgery, University of Washington, Seattle, WA 98195, USA
Mol Cancer 9:143. 2010....
- Gene expression profiling identifies genes predictive of oral squamous cell carcinomaChu Chen
Program in Epidemiology, Fred Hutchinson Cancer Research Center, Department of Epidemiology, 1100 Fairview Avenue North, M5 C800 P O Box 19024, Seattle, WA 98109 1024, USA
Cancer Epidemiol Biomarkers Prev 17:2152-62. 2008..If confirmed in larger studies, the proposed models may hold promise for monitoring local recurrence at surgical margins and the development of second primary oral cancer in patients with OSCC...
- Genomewide gene expression profiles of HPV-positive and HPV-negative oropharyngeal cancer: potential implications for treatment choicesPawadee Lohavanichbutr
Program in Epidemiology, Division of Public Health Sciences, Fred Hutchinson Cancer Research Center, Mail Stop M5 C800, 1100 Fairview Ave N, Seattle, WA 98109 1024, USA
Arch Otolaryngol Head Neck Surg 135:180-8. 2009..To study the difference in gene expression between human papillomavirus (HPV)-positive and HPV-negative oral cavity and oropharyngeal squamous cell carcinoma (OSCC)...
- Integrative analysis in oral squamous cell carcinoma reveals DNA copy number-associated miRNAs dysregulating target genesNicholas A Serrano
Department of Otolaryngology Head and Neck Surgery, University of Washington, Seattle, Washington 98115 7744, USA
Otolaryngol Head Neck Surg 147:501-8. 2012....
- Effect of MHC and non-MHC donor/recipient genetic disparity on the outcome of allogeneic HCTEdus H Warren
Clinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA
Blood 120:2796-806. 2012....
- Polymorphisms in nucleotide excision repair genes and endometrial cancer riskJennifer A Doherty
Division of Public Health Sciences, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA
Cancer Epidemiol Biomarkers Prev 20:1873-82. 2011..Certain estrogen metabolites can form bulky DNA adducts, which are removed via nucleotide excision repair (NER), and the ability to carry out this repair might be related to endometrial cancer risk...
- A genetic expression profile associated with oral cancer identifies a group of patients at high risk of poor survivalEduardo Mendez
Department of Otolaryngology Head and Neck Surgery, University of Washington, Seattle, WA 98109 1024, USA
Clin Cancer Res 15:1353-61. 2009..To determine if gene expression signature of invasive oral squamous cell carcinoma (OSCC) can subclassify OSCC based on survival...
- Genetic variation in CYP19A1 and risk of breast cancer and fibrocystic breast conditions among women in Shanghai, ChinaChu Chen
Program in Epidemiology, Division of Public Health Sciences, Fred Hutchinson Cancer Research Center, Mailstop M5 C800, P O Box 19024, Seattle, WA 98109 1024, USA
Cancer Epidemiol Biomarkers Prev 17:3457-66. 2008..Our findings suggest that CYP19A1 variation may enhance breast cancer development in some women, but further confirmation is warranted...
- Identification of radiation-induced expression changes in nonimmortalized human T cellsEra L Pogosova-Agadjanyan
Clinical Research Division, Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue N, Seattle, WA 98109, USA
Radiat Res 175:172-84. 2011..These findings suggest that RNA-based expression assays for a small subset of genes can be employed to develop clinical biodosimetry assays to be used in assessments of radiation exposure and toxicity...
- Evaluation of published single nucleotide polymorphisms associated with acute GVHDJason W Chien
Clinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, WA 98109 1024, USA
Blood 119:5311-9. 2012..These results illustrate the advantages of using imputed single-nucleotide polymorphism data in genetic analyses and demonstrate the importance of validation in genetic association studies...
- Simultaneous isolation of DNA and RNA from the same cell population obtained by laser capture microdissection for genome and transcriptome profilingChang Xu
Department of Otolaryngology Head and Neck Surgery, University of Washington, Seattle, WA, USA
J Mol Diagn 10:129-34. 2008..Thus, we developed a method to obtain both DNA and RNA material from a single population of LCM-harvested cells and herein discuss the strengths and limitations of this methodology...
- Analysis of cellular responses to aflatoxin B(1) in yeast expressing human cytochrome P450 1A2 using cDNA microarraysYingying Guo
Departmental of Environmental and Occupational Health Sciences, University of Washington, Seattle, WA, USA
Mutat Res 593:121-42. 2006....
- Phenotypic anchoring of global gene expression profiles induced by N-hydroxy-4-acetylaminobiphenyl and benzo[a]pyrene diol epoxide reveals correlations between expression profiles and mechanism of toxicityWen Luo
Division of Human Biology, Fred Hutchison Cancer Research Center, 1100 Fairview Avenue North, Seattle, Washington 98109, USA
Chem Res Toxicol 18:619-29. 2005..Differences in the transcriptional response of TK6 cells to N-OH-AABP or BPDE exposure may explain the dramatic differences in the toxicity and mutagenicity of these human carcinogens...
- Tumor-specific genetic expression profile of metastatic oral squamous cell carcinomaEduardo Mendez
Department of Otolaryngology Head and Neck Surgery, University of Washington, Seattle, Washington 98195, USA
Head Neck 29:803-14. 2007..Metastasis is the most important predictor of survival in patients with oral squamous cell carcinoma (OSCC). We tested the hypothesis that there is a genetic expression profile associated with OSCC metastasis...
- Identification of genes with abnormal expression changes in acute myeloid leukemiaDerek L Stirewalt
Clinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA
Genes Chromosomes Cancer 47:8-20. 2008..Future studies will determine their potential role in leukemogenesis and their clinical significance...
- ATF3 induction following DNA damage is regulated by distinct signaling pathways and over-expression of ATF3 protein suppresses cells growthFeiyue Fan
Department of Radiation Oncology, Cancer Institute, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania PA 15213, USA
Oncogene 21:7488-96. 2002..Interestingly, over-expression of ATF3 protein is able to slow down progression of cells from G1 to S phase, indicating that ATF3 protein might play a negative role in the control of cell cycle progression...
- Quantification of N-(deoxyguanosin-8-yl)-4-aminobiphenyl adducts in human lymphoblastoid TK6 cells dosed with N-hydroxy-4-acetylaminobiphenyl and their relationship to mutation, toxicity, and gene expression profilingElaine M Ricicki
The Barnett Institute and Department of Chemistry and Chemical Biology, Northeastern University, Boston, Massachusetts 02115, USA
Anal Chem 78:6422-32. 2006..The results demonstrate the value of anchoring gene expression patterns to phenotypic markers, such as DNA adduct levels, toxicity, and mutagenicity...
- The cloning and preliminarily functional analysis of the human neurotrimin geneJin Liu
National Laboratory of Medical Molecular Biology, Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences, School of Basic Medicine, Peking Union Medical College, National Human Genome North Center, Beijing 100005, China
Sci China C Life Sci 47:158-64. 2004..1+/Zeocin. The pcDNA3.1-HA-NTM is transfected into the Chinese Hamster Ovary (CHO) cells. The results demonstrate that HA-NTM is expressed on the surface of CHO cells and could strengthen the aggregation of CHO-NTM cells...
- GADD45-induced cell cycle G2-M arrest associates with altered subcellular distribution of cyclin B1 and is independent of p38 kinase activityShunqian Jin
Department of Radiation Oncology, Cancer Institute, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania, PA 15213, USA
Oncogene 21:8696-704. 2002..Therefore, GADD45 inhibition of Cdc2 kinase activity through alteration of cyclin B1 subcellular localization may be an essential step in the GADD45-induced cell cycle G2-M arrest and growth suppression...
- BRCA1 regulates GADD45 through its interactions with the OCT-1 and CAAT motifsWenhong Fan
Department of Radiation Oncology, Cancer Institute, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania 15213, USA
J Biol Chem 277:8061-7. 2002..These findings indicate that BRCA1 can up-regulate its targeted genes through protein-protein interactions and provide a novel mechanism by which BRCA1 participates in transcriptional regulation...