Published in PLoS One on March 11, 2013
Ovarian cancer stem cells express ROR1, which can be targeted for anti-cancer-stem-cell therapy. Proc Natl Acad Sci U S A (2014) 1.04
Prognostic biomarkers in endometrial and ovarian carcinoma. Virchows Arch (2014) 0.90
YAP/TEAD co-activator regulated pluripotency and chemoresistance in ovarian cancer initiated cells. PLoS One (2014) 0.90
Prediction of resistance to chemotherapy in ovarian cancer: a systematic review. BMC Cancer (2015) 0.85
Loss of expression of EphB1 protein in serous carcinoma of ovary associated with metastasis and poor survival. Int J Clin Exp Pathol (2013) 0.82
Enhancer alterations in cancer: a source for a cell identity crisis. Genome Med (2014) 0.80
Screening of feature genes of the ovarian cancer epithelia with DNA microarray. J Ovarian Res (2013) 0.78
Derivation of a fifteen gene prognostic panel for six cancers. Sci Rep (2015) 0.78
Distance in cancer gene expression from stem cells predicts patient survival. PLoS One (2017) 0.75
Biological markers of prognosis, response to therapy and outcome in ovarian carcinoma. Expert Rev Mol Diagn (2016) 0.75
Mesenchymal stem cells: A new diagnostic tool? World J Stem Cells (2015) 0.75
A Five-Gene Expression Signature Predicts Clinical Outcome of Ovarian Serous Cystadenocarcinoma. Biomed Res Int (2016) 0.75
Elucidation of molecular and functional heterogeneity through differential expression network analyses of discrete tumor subsets. Sci Rep (2016) 0.75
Salinomycin reduces stemness and induces apoptosis on human ovarian cancer stem cell. J Gynecol Oncol (2016) 0.75
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A (2005) 167.46
Cancer statistics, 2010. CA Cancer J Clin (2010) 103.28
Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics (2003) 100.88
Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res (2002) 76.95
Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc Natl Acad Sci U S A (2001) 68.44
Integrated genomic analyses of ovarian carcinoma. Nature (2011) 47.72
Comprehensive molecular portraits of human breast tumours. Nature (2012) 47.39
Core transcriptional regulatory circuitry in human embryonic stem cells. Cell (2005) 34.93
Gene-expression profiles to predict distant metastasis of lymph-node-negative primary breast cancer. Lancet (2005) 29.45
Inhibition of poly(ADP-ribose) polymerase in tumors from BRCA mutation carriers. N Engl J Med (2009) 24.75
An embryonic stem cell-like gene expression signature in poorly differentiated aggressive human tumors. Nat Genet (2008) 17.67
Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data. Nucleic Acids Res (2005) 17.58
Identification of human triple-negative breast cancer subtypes and preclinical models for selection of targeted therapies. J Clin Invest (2011) 14.22
An expression signature for p53 status in human breast cancer predicts mutation status, transcriptional effects, and patient survival. Proc Natl Acad Sci U S A (2005) 13.54
Tackling the widespread and critical impact of batch effects in high-throughput data. Nat Rev Genet (2010) 11.82
Triple-negative breast cancer. N Engl J Med (2010) 11.39
Genomic targets of the human c-Myc protein. Genes Dev (2003) 9.67
Strong time dependence of the 76-gene prognostic signature for node-negative breast cancer patients in the TRANSBIG multicenter independent validation series. Clin Cancer Res (2007) 8.41
Novel molecular subtypes of serous and endometrioid ovarian cancer linked to clinical outcome. Clin Cancer Res (2008) 8.17
The origin and pathogenesis of epithelial ovarian cancer: a proposed unifying theory. Am J Surg Pathol (2010) 7.27
Biological processes associated with breast cancer clinical outcome depend on the molecular subtypes. Clin Cancer Res (2008) 5.88
Retracted An integrated genomic-based approach to individualized treatment of patients with advanced-stage ovarian cancer. J Clin Oncol (2007) 5.77
BRCA1 regulates human mammary stem/progenitor cell fate. Proc Natl Acad Sci U S A (2008) 4.79
The CD44+/CD24- phenotype is enriched in basal-like breast tumors. Breast Cancer Res (2008) 4.63
Extensions to gene set enrichment. Bioinformatics (2006) 4.26
The genesis and evolution of high-grade serous ovarian cancer. Nat Rev Cancer (2010) 4.06
Triple-negative breast cancer: disease entity or title of convenience? Nat Rev Clin Oncol (2010) 3.98
Lung metastasis genes couple breast tumor size and metastatic spread. Proc Natl Acad Sci U S A (2007) 3.92
BRCA1 dysfunction in sporadic basal-like breast cancer. Oncogene (2006) 3.91
A meta-analysis of human embryonic stem cells transcriptome integrated into a web-based expression atlas. Stem Cells (2007) 3.62
New insights into the pathogenesis of serous ovarian cancer and its clinical impact. J Clin Oncol (2008) 3.26
Mouse model of human ovarian endometrioid adenocarcinoma based on somatic defects in the Wnt/beta-catenin and PI3K/Pten signaling pathways. Cancer Cell (2007) 3.02
GeneSigDB--a curated database of gene expression signatures. Nucleic Acids Res (2009) 2.65
Gene expression patterns associated with p53 status in breast cancer. BMC Cancer (2006) 2.61
Gene expression profiles of luteal phase fallopian tube epithelium from BRCA mutation carriers resemble high-grade serous carcinoma. Clin Cancer Res (2008) 2.23
Improved precision and accuracy for microarrays using updated probe set definitions. BMC Bioinformatics (2007) 2.17
How to decide? Different methods of calculating gene expression from short oligonucleotide array data will give different results. BMC Bioinformatics (2006) 2.13
Involvement of SDF-1alpha/CXCR4 axis in the enhanced peritoneal metastasis of epithelial ovarian carcinoma. Int J Cancer (2008) 2.06
Survival-related profile, pathways, and transcription factors in ovarian cancer. PLoS Med (2009) 1.88
Gene expression profiles associated with response to chemotherapy in epithelial ovarian cancers. Clin Cancer Res (2005) 1.86
Ovarian cancer stem-like side-population cells are tumourigenic and chemoresistant. Br J Cancer (2010) 1.85
Inactivation of p53 in breast cancers correlates with stem cell transcriptional signatures. Proc Natl Acad Sci U S A (2010) 1.78
Ovarian cancer pathogenesis: a model in evolution. J Oncol (2009) 1.77
Experimental evidence showing that no mitotically active female germline progenitors exist in postnatal mouse ovaries. Proc Natl Acad Sci U S A (2012) 1.77
Ovarian cancer stem cell-like side populations are enriched following chemotherapy and overexpress EZH2. Mol Cancer Ther (2011) 1.70
The development of high-grade serous carcinoma from atypical proliferative (borderline) serous tumors and low-grade micropapillary serous carcinoma: a morphologic and molecular genetic analysis. Am J Surg Pathol (2007) 1.70
Loss of FOXA1/2 is essential for the epithelial-to-mesenchymal transition in pancreatic cancer. Cancer Res (2010) 1.69
Identifying splits with clear separation: a new class discovery method for gene expression data. Bioinformatics (2001) 1.67
High frequency of TP53 mutation in BRCA1 and sporadic basal-like carcinomas but not in BRCA1 luminal breast tumors. Cancer Res (2009) 1.61
Poly(ADP-Ribose) polymerase inhibition: "targeted" therapy for triple-negative breast cancer. Clin Cancer Res (2010) 1.56
Making the best of PARP inhibitors in ovarian cancer. Nat Rev Clin Oncol (2010) 1.47
Ovarian cancer stem cell markers: prognostic and therapeutic implications. Cancer Lett (2012) 1.38
Angiogenic mRNA and microRNA gene expression signature predicts a novel subtype of serous ovarian cancer. PLoS One (2012) 1.31
Regulation of cell differentiation by the DNA damage response. Trends Cell Biol (2011) 1.25
Using a stem cell-based signature to guide therapeutic selection in cancer. Cancer Res (2010) 1.24
FOXA2 functions as a suppressor of tumor metastasis by inhibition of epithelial-to-mesenchymal transition in human lung cancers. Cell Res (2010) 1.13
Evidence for cancer stem cells contributing to the pathogenesis of ovarian cancer. Front Biosci (Landmark Ed) (2011) 1.08
Role of foxj1 and estrogen receptor alpha in ciliated epithelial cell differentiation of the neonatal oviduct. J Mol Endocrinol (2004) 1.00
Defining the cut point between low-grade and high-grade ovarian serous carcinomas: a clinicopathologic and molecular genetic analysis. Am J Surg Pathol (2009) 0.98
An antagonist of the chemokine receptor CXCR4 induces mitotic catastrophe in ovarian cancer cells. Mol Cancer Ther (2009) 0.95
Nanog is highly expressed in ovarian serous cystadenocarcinoma and correlated with clinical stage and pathological grade. Pathobiology (2011) 0.90
Prediction of breast cancer prognosis by gene expression profile of TP53 status. Cancer Sci (2008) 0.90
Identification of quiescent, stem-like cells in the distal female reproductive tract. PLoS One (2012) 0.87
Expression of octamer-4 in serous and mucinous ovarian carcinoma. J Clin Pathol (2010) 0.87
Comparison of four chemotherapy regimens for advanced non-small-cell lung cancer. N Engl J Med (2002) 24.87
Gene expression profiling in breast cancer: understanding the molecular basis of histologic grade to improve prognosis. J Natl Cancer Inst (2006) 14.60
TM4 microarray software suite. Methods Enzymol (2006) 13.78
Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project. Nat Biotechnol (2008) 12.96
TIGR Gene Indices clustering tools (TGICL): a software system for fast clustering of large EST datasets. Bioinformatics (2003) 12.00
Multiple-laboratory comparison of microarray platforms. Nat Methods (2005) 11.74
Genesis: cluster analysis of microarray data. Bioinformatics (2002) 10.50
Identification of conserved gene expression features between murine mammary carcinoma models and human breast tumors. Genome Biol (2007) 10.49
Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii. Nature (2002) 8.92
Definition of clinically distinct molecular subtypes in estrogen receptor-positive breast carcinomas through genomic grade. J Clin Oncol (2007) 8.65
Strong time dependence of the 76-gene prognostic signature for node-negative breast cancer patients in the TRANSBIG multicenter independent validation series. Clin Cancer Res (2007) 8.41
Repeatability of published microarray gene expression analyses. Nat Genet (2008) 8.24
A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB. BMC Bioinformatics (2006) 7.53
A biologic definition of Burkitt's lymphoma from transcriptional and genomic profiling. N Engl J Med (2006) 7.42
Integrative annotation of 21,037 human genes validated by full-length cDNA clones. PLoS Biol (2004) 7.17
RAP80 targets BRCA1 to specific ubiquitin structures at DNA damage sites. Science (2007) 6.70
Meta-analysis of gene expression profiles in breast cancer: toward a unified understanding of breast cancer subtyping and prognosis signatures. Breast Cancer Res (2008) 6.63
Independence and reproducibility across microarray platforms. Nat Methods (2005) 6.26
An atlas of combinatorial transcriptional regulation in mouse and man. Cell (2010) 6.24
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nat Genet (2009) 6.02
Biological processes associated with breast cancer clinical outcome depend on the molecular subtypes. Clin Cancer Res (2008) 5.88
ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level. Bioinformatics (2010) 5.60
Exome sequencing-based copy-number variation and loss of heterozygosity detection: ExomeCNV. Bioinformatics (2011) 5.45
miR-24 Inhibits cell proliferation by targeting E2F2, MYC, and other cell-cycle genes via binding to "seedless" 3'UTR microRNA recognition elements. Mol Cell (2009) 5.22
Marked genomic differences characterize primary and secondary glioblastoma subtypes and identify two distinct molecular and clinical secondary glioblastoma entities. Cancer Res (2006) 4.80
Aberrant lipid metabolism disrupts calcium homeostasis causing liver endoplasmic reticulum stress in obesity. Nature (2011) 4.78
Toward interoperable bioscience data. Nat Genet (2012) 4.72
Within the fold: assessing differential expression measures and reproducibility in microarray assays. Genome Biol (2002) 4.67
Clinical and biologic implications of recurrent genomic aberrations in myeloma. Blood (2003) 4.67
Interpreting cancer genomes using systematic host network perturbations by tumour virus proteins. Nature (2012) 4.35
Expression Profiler: next generation--an online platform for analysis of microarray data. Nucleic Acids Res (2004) 4.21
Human Proteinpedia enables sharing of human protein data. Nat Biotechnol (2008) 4.21
Standards for microarray data. Science (2002) 4.11
Cross-referencing eukaryotic genomes: TIGR Orthologous Gene Alignments (TOGA). Genome Res (2002) 3.93
Open source software for the analysis of microarray data. Biotechniques (2003) 3.89
Submission of microarray data to public repositories. PLoS Biol (2004) 3.83
Penalized partial likelihood regression for right-censored data with bootstrap selection of the penalty parameter. Biometrics (2002) 3.67
Gene expression profile of BRCAness that correlates with responsiveness to chemotherapy and with outcome in patients with epithelial ovarian cancer. J Clin Oncol (2010) 3.54
Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE). Nat Biotechnol (2008) 3.43
Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data. BMC Bioinformatics (2006) 3.31
Predicting prognosis using molecular profiling in estrogen receptor-positive breast cancer treated with tamoxifen. BMC Genomics (2008) 3.24
Standards for microarray data: an open letter. Environ Health Perspect (2004) 3.15
The TIGR rice genome annotation resource: annotating the rice genome and creating resources for plant biologists. Nucleic Acids Res (2003) 3.12
Comprehensive biostatistical analysis of CpG island methylator phenotype in colorectal cancer using a large population-based sample. PLoS One (2008) 2.92
What would you do if you could sequence everything? Nat Biotechnol (2008) 2.89
Molecular staging for survival prediction of colorectal cancer patients. J Clin Oncol (2005) 2.88
Allele-specific amplification in cancer revealed by SNP array analysis. PLoS Comput Biol (2005) 2.84
A function for cyclin D1 in DNA repair uncovered by protein interactome analyses in human cancers. Nature (2011) 2.82
PLASQ: a generalized linear model-based procedure to determine allelic dosage in cancer cells from SNP array data. Biostatistics (2006) 2.82
PIK3CA mutations associated with gene signature of low mTORC1 signaling and better outcomes in estrogen receptor-positive breast cancer. Proc Natl Acad Sci U S A (2010) 2.79
The underlying principles of scientific publication. Bioinformatics (2002) 2.79
Osteopontin identified as lead marker of colon cancer progression, using pooled sample expression profiling. J Natl Cancer Inst (2002) 2.77
Understanding cancer patients' experience and outcomes: development and pilot study of the Cancer Care Outcomes Research and Surveillance patient survey. Support Care Cancer (2006) 2.73
ASTD: The Alternative Splicing and Transcript Diversity database. Genomics (2008) 2.72
Gene signatures of progression and metastasis in renal cell cancer. Clin Cancer Res (2005) 2.67
GeneSigDB--a curated database of gene expression signatures. Nucleic Acids Res (2009) 2.65
Amplification of LAPTM4B and YWHAZ contributes to chemotherapy resistance and recurrence of breast cancer. Nat Med (2010) 2.62
microRNA-29c and microRNA-223 down-regulation has in vivo significance in chronic lymphocytic leukemia and improves disease risk stratification. Blood (2009) 2.58
Universal RNA reference materials for gene expression. Clin Chem (2004) 2.53
Gene modules and response to neoadjuvant chemotherapy in breast cancer subtypes: a pooled analysis. J Clin Oncol (2012) 2.50
Transcript annotation in FANTOM3: mouse gene catalog based on physical cDNAs. PLoS Genet (2006) 2.48
A three-gene model to robustly identify breast cancer molecular subtypes. J Natl Cancer Inst (2012) 2.34
Whole-genome gene expression profiling of formalin-fixed, paraffin-embedded tissue samples. PLoS One (2009) 2.21
CD4⁺ follicular helper T cell infiltration predicts breast cancer survival. J Clin Invest (2013) 2.18
Development and evaluation of an automated annotation pipeline and cDNA annotation system. Genome Res (2003) 2.15
Keap1 mutations and Nrf2 pathway activation in epithelial ovarian cancer. Cancer Res (2011) 2.14
Multi-platform, multi-site, microarray-based human tumor classification. Am J Pathol (2004) 2.14
Functional classification analysis of somatically mutated genes in human breast and colorectal cancers. Genomics (2008) 2.11
Physiogenomic resources for rat models of heart, lung and blood disorders. Nat Genet (2006) 2.05
Capture of microRNA-bound mRNAs identifies the tumor suppressor miR-34a as a regulator of growth factor signaling. PLoS Genet (2011) 2.00
Epithelial progeny of estrogen-exposed breast progenitor cells display a cancer-like methylome. Cancer Res (2008) 1.99
New insights into the biology and origin of mature aggressive B-cell lymphomas by combined epigenomic, genomic, and transcriptional profiling. Blood (2008) 1.97
BRENDA: a resource for enzyme data and metabolic information. Trends Biochem Sci (2002) 1.97
Uneven chromosome contraction and expansion in the maize genome. Genome Res (2006) 1.96
Global transcription profiling reveals comprehensive insights into hypoxic response in Arabidopsis. Plant Physiol (2005) 1.94
Assessing unmodified 70-mer oligonucleotide probe performance on glass-slide microarrays. Genome Biol (2003) 1.94
Genomic grade index is associated with response to chemotherapy in patients with breast cancer. J Clin Oncol (2009) 1.93
Comparative analyses of potato expressed sequence tag libraries. Plant Physiol (2003) 1.84
Proliferative genes dominate malignancy-risk gene signature in histologically-normal breast tissue. Breast Cancer Res Treat (2009) 1.83
Discrimination of non-protein-coding transcripts from protein-coding mRNA. RNA Biol (2006) 1.82
Integrating computationally assembled mouse transcript sequences with the Mouse Genome Informatics (MGI) database. Genome Biol (2003) 1.82
DNA methylation profiling reveals a predominant immune component in breast cancers. EMBO Mol Med (2011) 1.81
The generation and utilization of a cancer-oriented representation of the human transcriptome by using expressed sequence tags. Proc Natl Acad Sci U S A (2003) 1.79
Biological and prognostic significance of interphase fluorescence in situ hybridization detection of chromosome 13 abnormalities (delta13) in multiple myeloma: an eastern cooperative oncology group study. Cancer Res (2002) 1.79
Orthologous gene-expression profiling in multi-species models: search for candidate genes. Genome Biol (2004) 1.77
Comparison and validation of genomic predictors for anticancer drug sensitivity. J Am Med Inform Assoc (2013) 1.73
Gene-expression profiling in epithelial ovarian cancer. Nat Clin Pract Oncol (2008) 1.73
Gene expression profiling of lymphoblastoid cell lines from monozygotic twins discordant in severity of autism reveals differential regulation of neurologically relevant genes. BMC Genomics (2006) 1.73
Global microRNA expression profiling identifies MiR-210 associated with tumor proliferation, invasion and poor clinical outcome in breast cancer. PLoS One (2011) 1.72
Data-driven normalization strategies for high-throughput quantitative RT-PCR. BMC Bioinformatics (2009) 1.71
survcomp: an R/Bioconductor package for performance assessment and comparison of survival models. Bioinformatics (2011) 1.70
Optimization and evaluation of surface-enhanced laser desorption/ionization time-of-flight mass spectrometry (SELDI-TOF MS) with reversed-phase protein arrays for protein profiling. Clin Chem Lab Med (2005) 1.68
Altered proliferation and differentiation properties of primary mammary epithelial cells from BRCA1 mutation carriers. Cancer Res (2009) 1.66
Myeloma and the t(11;14)(q13;q32); evidence for a biologically defined unique subset of patients. Blood (2002) 1.63
Relationship of DNA methylation and gene expression in idiopathic pulmonary fibrosis. Am J Respir Crit Care Med (2014) 1.63