Published in BMC Bioinformatics on August 17, 2006
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Transcription factor binding site analysis identifies FOXO transcription factors as regulators of the cutaneous wound healing process. PLoS One (2014) 0.78
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Use of gene-expression profiling to identify prognostic subclasses in adult acute myeloid leukemia. N Engl J Med (2004) 9.81
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Enrichment of regulatory signals in conserved non-coding genomic sequence. Bioinformatics (2001) 2.27
Identification of transcription factor binding sites in the human genome sequence. Mamm Genome (2002) 2.00
Genome-wide mapping of protein-DNA interactions by chromatin immunoprecipitation and DNA microarray hybridization. Methods Mol Biol (2003) 1.67
Discovering functional transcription-factor combinations in the human cell cycle. Genome Res (2005) 1.53
CONFAC: automated application of comparative genomic promoter analysis to DNA microarray datasets. Nucleic Acids Res (2004) 1.44
Sequence comparison of human and mouse genes reveals a homologous block structure in the promoter regions. Genome Res (2004) 1.25
DNaseI hypersensitivity analysis of chromatin structure. Methods Mol Biol (2004) 1.12
Transcriptional regulation of protein complexes and biological pathways. Mamm Genome (2003) 0.90
Segmentation-based detection of allelic imbalance and loss-of-heterozygosity in cancer cells using whole genome SNP arrays. Genome Biol (2008) 2.67
Normalization of Illumina Infinium whole-genome SNP data improves copy number estimates and allelic intensity ratios. BMC Bioinformatics (2008) 2.66
Constitutional short telomeres are strong genetic susceptibility markers for bladder cancer. Carcinogenesis (2005) 2.47
A molecular taxonomy for urothelial carcinoma. Clin Cancer Res (2012) 2.37
High-resolution genomic profiles of breast cancer cell lines assessed by tiling BAC array comparative genomic hybridization. Genes Chromosomes Cancer (2007) 2.34
MiRNA expression in urothelial carcinomas: important roles of miR-10a, miR-222, miR-125b, miR-7 and miR-452 for tumor stage and metastasis, and frequent homozygous losses of miR-31. Int J Cancer (2009) 2.06
Combined gene expression and genomic profiling define two intrinsic molecular subtypes of urothelial carcinoma and gene signatures for molecular grading and outcome. Cancer Res (2010) 1.99
Frequent amplification of 8q24, 11q, 17q, and 20q-specific genes in pancreatic cancer. Genes Chromosomes Cancer (2002) 1.81
The breakpoint region of the most common isochromosome, i(17q), in human neoplasia is characterized by a complex genomic architecture with large, palindromic, low-copy repeats. Am J Hum Genet (2003) 1.70
Structural and numerical chromosome changes in colon cancer develop through telomere-mediated anaphase bridges, not through mitotic multipolarity. Proc Natl Acad Sci U S A (2005) 1.61
Integrated genomic and gene expression profiling identifies two major genomic circuits in urothelial carcinoma. PLoS One (2012) 1.56
Genome-wide array-based comparative genomic hybridization reveals multiple amplification targets and novel homozygous deletions in pancreatic carcinoma cell lines. Cancer Res (2004) 1.49
Clustering of deletions on chromosome 13 in benign and low-malignant lipomatous tumors. Int J Cancer (2003) 1.45
Independent component analysis reveals new and biologically significant structures in micro array data. BMC Bioinformatics (2006) 1.44
Molecular signatures in childhood acute leukemia and their correlations to expression patterns in normal hematopoietic subpopulations. Proc Natl Acad Sci U S A (2005) 1.36
Tiling resolution array CGH and high density expression profiling of urothelial carcinomas delineate genomic amplicons and candidate target genes specific for advanced tumors. BMC Med Genomics (2008) 1.24
A systematic study of gene mutations in urothelial carcinoma; inactivating mutations in TSC2 and PIK3R1. PLoS One (2011) 1.21
Molecular profiling reveals low- and high-grade forms of primary melanoma. Clin Cancer Res (2012) 1.17
Differentially amplified chromosome 12 sequences in low- and high-grade osteosarcoma. Genes Chromosomes Cancer (2002) 1.12
New probabilistic network models and algorithms for oncogenesis. J Comput Biol (2006) 1.11
DNA methylation analyses of urothelial carcinoma reveal distinct epigenetic subtypes and an association between gene copy number and methylation status. Epigenetics (2012) 1.07
Association between polymorphisms in RMI1, TOP3A, and BLM and risk of cancer, a case-control study. BMC Cancer (2009) 1.05
Prediction of stage, grade, and survival in bladder cancer using genome-wide expression data: a validation study. Clin Cancer Res (2010) 1.04
Toward a molecular pathologic classification of urothelial carcinoma. Am J Pathol (2013) 1.03
Non-negative matrix factorization for the analysis of complex gene expression data: identification of clinically relevant tumor subtypes. Cancer Inform (2008) 1.00
Distinct mitotic segregation errors mediate chromosomal instability in aggressive urothelial cancers. Clin Cancer Res (2007) 0.99
Approximate geodesic distances reveal biologically relevant structures in microarray data. Bioinformatics (2004) 0.97
Connecting mitotic instability and chromosome aberrations in cancer--can telomeres bridge the gap? Semin Cancer Biol (2005) 0.97
A pooled analysis of karyotypic patterns, breakpoints and imbalances in 783 cytogenetically abnormal multiple myelomas reveals frequently involved chromosome segments as well as significant age- and sex-related differences. Br J Haematol (2003) 0.96
Detailed genomic mapping and expression analyses of 12p amplifications in pancreatic carcinomas reveal a 3.5-Mb target region for amplification. Genes Chromosomes Cancer (2002) 0.94
Clinical and genetic studies of ETV6/ABL1-positive chronic myeloid leukaemia in blast crisis treated with imatinib mesylate. Br J Haematol (2003) 0.93
Genome-wide transcription factor binding site/promoter databases for the analysis of gene sets and co-occurrence of transcription factor binding motifs. BMC Genomics (2010) 0.93
Robust assignment of cancer subtypes from expression data using a uni-variate gene expression average as classifier. BMC Cancer (2010) 0.92
Genetic variant of the human homologous recombination-associated gene RMI1 (S455N) impacts the risk of AML/MDS and malignant melanoma. Cancer Lett (2007) 0.92
Monitoring of technical variation in quantitative high-throughput datasets. Cancer Inform (2013) 0.91
Tissue microarray based analysis of prognostic markers in invasive bladder cancer: much effort to no avail? Urol Oncol (2007) 0.90
Promoter analysis of epigenetically controlled genes in bladder cancer. Genes Chromosomes Cancer (2008) 0.89
Recurrent and multiple bladder tumors show conserved expression profiles. BMC Cancer (2008) 0.89
Vitamin D receptor is expressed in pancreatic cancer cells and a vitamin D3 analogue decreases cell number. Pancreatology (2003) 0.89
Multicolor COBRA-FISH analysis of chronic myeloid leukemia reveals novel cryptic balanced translocations during disease progression. Genes Chromosomes Cancer (2002) 0.87
Can tissue microarray-based analysis of protein expression predict recurrence of stage Ta bladder cancer? Scand J Urol Nephrol (2011) 0.86
Pancreatic carcinoma cell lines with SMAD4 inactivation show distinct expression responses to TGFB1. Genes Chromosomes Cancer (2003) 0.85
Power law distribution of chromosome aberrations in cancer. Cancer Res (2003) 0.85
Telomere-mediated mitotic disturbances in immortalized ovarian epithelial cells reproduce chromosomal losses and breakpoints from ovarian carcinoma. Genes Chromosomes Cancer (2005) 0.84
MDS/AML-associated cytogenetic abnormalities in multiple myeloma and monoclonal gammopathy of undetermined significance: evidence for frequent de novo occurrence and multipotent stem cell involvement of del(20q). Genes Chromosomes Cancer (2004) 0.82
Genotyping techniques to address diversity in tumors. Adv Cancer Res (2011) 0.79
Detailed Analysis of Focal Chromosome Arm 1q and 6p Amplifications in Urothelial Carcinoma Reveals Complex Genomic Events on 1q, and SOX4 as a Possible Auxiliary Target on 6p. PLoS One (2013) 0.79
High frequencies of chromosomal aberrations in multiple myeloma and monoclonal gammopathy of undetermined significance in direct chromosome preparation. Br J Haematol (2004) 0.78
Distinct evolutionary mechanisms for genomic imbalances in high-risk and low-risk neuroblastomas. J Carcinog (2007) 0.78
A model for karyotypic evolution in testicular germ cell tumors. Genes Chromosomes Cancer (2004) 0.76
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The importance of being grade 3: WHO 1999 versus WHO 2004 pathologic grading. Eur Urol (2012) 0.75
Cyclin D1 amplification in chromosomal band 11q13 is associated with overrepresentation of 3q21-q29 in head and neck carcinomas. Int J Cancer (2002) 0.75