Research Topics
Genomes and GenesSpecies | William ShannonSummaryAffiliation: Washington University School of Medicine Country: USA Publications
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Publications
Analyzing microarray data using cluster analysisWilliam Shannon
Department of Medicine, Washington University School of Medicine, 660 S Euclid Avenue, Campus Box 8005, St Louis, MO 63110, USA
Pharmacogenomics 4:41-52. 2003..The goal is to use the data itself to identify meaningful or informative subgroups. Specifically, we will focus on demonstrating the use of distance-based methods of hierarchical clustering to analyze gene expression data...- Mantel statistics to correlate gene expression levels from microarrays with clinical covariatesWilliam D Shannon
Department of Medicine, Washington University in St Louis School of Medicine, St Louis, Missouri 63110, USA
Genet Epidemiol 23:87-96. 2002..We also show how the Mantel statistics can be used to rank subsets of genes, found using standard clustering methods, in terms of differential expression across samples... 
Effect of zoledronic acid on disseminated tumour cells in women with locally advanced breast cancer: an open label, randomised, phase 2 trialRebecca Aft
Department of Surgery, Washington University School of Medicine, St Louis, MO 63110, USA
Lancet Oncol 11:421-8. 2010..The aim of our study was to assess the effect of zoledronic acid on clearance of disseminated tumour cells (DTCs) from the bone marrow in women undergoing neoadjuvant chemotherapy for breast cancer...
A pilot study of high-throughput, sequence-based mutational profiling of primary human acute myeloid leukemia cell genomesTimothy J Ley
Department of Medicine, Siteman Cancer Center, Washington University School of Medicine, St Louis, MO 63110, USA
Proc Natl Acad Sci U S A 100:14275-80. 2003..This strategy represents a viable approach for the detection of potentially relevant, nonrandom mutations in primary human cancer cell genomes...- Alveolar bone measurement precision for phosphor-plate imagesCharles F Hildebolt
Radiology, Washington University School of Medicine, St Louis, Missouri 63110, USA
Oral Surg Oral Med Oral Pathol Oral Radiol Endod 108:e96-107. 2009..The aim was to demonstrate methods for determining measurement precision and to determine the precision of alveolar bone measurements made with a vacuum-coupled positioning device and phosphor plate images... - Distinct patterns of mutations occurring in de novo AML versus AML arising in the setting of severe congenital neutropeniaDaniel C Link
Division of Oncology, Department of Medicine, Washington University, St Louis, MO 63110, USA
Blood 110:1648-55. 2007..These data support the hypothesis that mutations of CSF3R may provide the "activated tyrosine kinase signal" that is thought to be important for leukemogenesis... - DNMT3A mutations in acute myeloid leukemiaTimothy J Ley
Department of Genetics, Genome Center, Washington University, St Louis, MO 63110, USA
N Engl J Med 363:2424-33. 2010..The genetic alterations responsible for an adverse outcome in most patients with acute myeloid leukemia (AML) are unknown... - Somatic mutations and germline sequence variants in the expressed tyrosine kinase genes of patients with de novo acute myeloid leukemiaMichael H Tomasson
Division of Oncology, Department of Medicine, Washington University School of Medicine, St Louis, MO 63110, USA
Blood 111:4797-808. 2008..Additional studies will be required to define the roles that these somatic and germline TK gene variants play in AML pathogenesis... - A high-resolution map of segmental DNA copy number variation in the mouse genomeTimothy A Graubert
Department of Medicine, Division of Oncology, Stem Cell Biology Section, Washington University, St Louis, Missouri, United States of America
PLoS Genet 3:e3. 2007..Annotation of CNVs in the mouse genome combined with sequence-based analysis provides an important resource that will help define the genetic basis of complex traits... - Sepsis gene expression profiling: murine splenic compared with hepatic responses determined by using complementary DNA microarraysJ Perren Cobb
Department of Surgery, Washington University School of Medicine, St Louis, MO 63110, USA
Crit Care Med 30:2711-21. 2002..quot;.. - Detecting epistatic interactions contributing to quantitative traitsRobert Culverhouse
Department of Medicine, Washington University in St Louis School of Medicine, St Louis, Missouri 63110, USA
Genet Epidemiol 27:141-52. 2004..Although the examples in this article involve 2-locus interactions, the RPM is computationally feasible for the analysis of more than two loci or factors... - DNA microarray analysis of gene expression in human optic nerve head astrocytes in response to hydrostatic pressurePing Yang
Department of Ophthalmology and Visual Sciences, Washington University School of Medicine, St. Louis, Missouri 63110, USA
Physiol Genomics 17:157-69. 2004..These HP-responsive genes may be important in the establishment and maintenance of the ONH astrocyte phenotype under conditions of elevated IOP in glaucoma... - Acquired copy number alterations in adult acute myeloid leukemia genomesMatthew J Walter
Department of Medicine, Washington University School of Medicine, St Louis, MO 63110, USA
Proc Natl Acad Sci U S A 106:12950-5. 2009.... - In vivo administration of hypomethylating agents mitigate graft-versus-host disease without sacrificing graft-versus-leukemiaJaebok Choi
Division of Oncology, Department of Medicine, Washington University, St Louis, MO 63110, USA
Blood 116:129-39. 2010.... - Expression profiling of murine acute promyelocytic leukemia cells reveals multiple model-dependent progression signaturesMatthew J Walter
Division of Oncology, Section of Stem Cell Biology, Campus Box 8007, 660 South Euclid Ave, St Louis, MO 63110 1093, USA
Mol Cell Biol 24:10882-93. 2004..The two models exhibited distinct gene expression profiles, suggesting that the dominant molecular signatures of murine acute promyelocytic leukemia can be influenced by several independent progression events... - Limb dominance as a potential etiologic factor in noncontact anterior cruciate ligament tearsMatthew J Matava
Sports Medicine Section, Department of Orthopedic Surgery, Washington University School of Medicine, St Louis, MO, USA
J Knee Surg 15:11-6. 2002..65). Limited numbers precluded an analysis of specific limb-dominant sports activities as potential risk factors. The results of this pilot study suggest limb dominance is not a significant etiologic factor for noncontact ACL tears... - Identification of somatic JAK1 mutations in patients with acute myeloid leukemiaZhifu Xiang
Department of Medicine, Washington University School of Medicine, St Louis, St Louis, MO 63110, USA
Blood 111:4809-12. 2008..This is the first report to demonstrate somatic JAK1 mutations in AML and suggests that JAK1 mutations may function as disease-modifying mutations in AML pathogenesis... - Recurring mutations found by sequencing an acute myeloid leukemia genomeElaine R Mardis
Department of Genetics, Washington University, St Louis, MO 63110, USA
N Engl J Med 361:1058-66. 2009..The full complement of DNA mutations that are responsible for the pathogenesis of acute myeloid leukemia (AML) is not yet known... - Variance in the expression of 5-Fluorouracil pathway genes in colorectal cancerElizabeth A Kidd
Department of Medicine, Alvin J. Siteman Cancer Center, Washington University School of Medicine, St. Louis, Missouri 63110, USA
Clin Cancer Res 11:2612-9. 2005..These variations in gene expression could provide valuable insights for optimizing treatment selection for patients with colorectal cancer... - A mouse model for developing treatment for secondary liver tumorsShi-Rong Cai
Departmen of Medicine, Washington University School of Medicine, St. Louis, MO 63110, USA
Int J Oncol 27:113-20. 2005....