Published in Bioinformatics on September 17, 2007
Performing statistical analyses on quantitative data in Taverna workflows: an example using R and maxdBrowse to identify differentially-expressed genes from microarray data. BMC Bioinformatics (2008) 1.73
Enhanced IL-17 signalling following myocardial ischaemia/reperfusion injury. Int J Cardiol (2011) 1.52
State of art fusion-finder algorithms are suitable to detect transcription-induced chimeras in normal tissues? BMC Bioinformatics (2013) 1.45
Skin regeneration in adult axolotls: a blueprint for scar-free healing in vertebrates. PLoS One (2012) 1.38
Synergistic binding of transcription factors to cell-specific enhancers programs motor neuron identity. Nat Neurosci (2013) 1.36
State-of-the-art fusion-finder algorithms sensitivity and specificity. Biomed Res Int (2013) 1.35
User-friendly solutions for microarray quality control and pre-processing on ArrayAnalysis.org. Nucleic Acids Res (2013) 1.35
Dissecting an alternative splicing analysis workflow for GeneChip Exon 1.0 ST Affymetrix arrays. BMC Genomics (2008) 1.25
easyExon--a Java-based GUI tool for processing and visualization of Affymetrix exon array data. BMC Bioinformatics (2008) 1.05
Global gene expression profiling of human pleural mesotheliomas: identification of matrix metalloproteinase 14 (MMP-14) as potential tumour target. PLoS One (2009) 1.05
MiR-155 has a protective role in the development of non-alcoholic hepatosteatosis in mice. PLoS One (2013) 1.04
The chromatin remodeller CHD8 is required for E2F-dependent transcription activation of S-phase genes. Nucleic Acids Res (2013) 1.01
Biased inheritance of the protein PatN frees vegetative cells to initiate patterned heterocyst differentiation. Proc Natl Acad Sci U S A (2012) 0.99
Optimizing a massive parallel sequencing workflow for quantitative miRNA expression analysis. PLoS One (2012) 0.97
Integration of Cistromic and Transcriptomic Analyses Identifies Nphs2, Mafb, and Magi2 as Wilms' Tumor 1 Target Genes in Podocyte Differentiation and Maintenance. J Am Soc Nephrol (2015) 0.95
Transcriptional profiling of polycythemia vera identifies gene expression patterns both dependent and independent from the action of JAK2V617F. Clin Cancer Res (2010) 0.95
New targets of urocortin-mediated cardioprotection. J Mol Endocrinol (2010) 0.91
Enhanced sensitivity to IL-2 signaling regulates the clinical responsiveness of IL-12-primed CD8(+) T cells in a melanoma model. J Immunol (2011) 0.91
Alternative splicing and transcriptome profiling of experimental autoimmune encephalomyelitis using genome-wide exon arrays. PLoS One (2009) 0.88
MiR-30e and miR-181d control radial glia cell proliferation via HtrA1 modulation. Cell Death Dis (2012) 0.87
Mitochondrial network genes in the skeletal muscle of amyotrophic lateral sclerosis patients. PLoS One (2013) 0.86
Characterization of a genetic mouse model of lung cancer: a promise to identify Non-Small Cell Lung Cancer therapeutic targets and biomarkers. BMC Genomics (2014) 0.86
Cell-to-cell signaling influences the fate of prostate cancer stem cells and their potential to generate more aggressive tumors. PLoS One (2012) 0.85
Transcription factors GATA4 and HNF4A control distinct aspects of intestinal homeostasis in conjunction with transcription factor CDX2. J Biol Chem (2014) 0.85
Critical roles for Rictor/Sin1 complexes in interferon-dependent gene transcription and generation of antiproliferative responses. J Biol Chem (2014) 0.84
Characterization of the macrophage transcriptome in glomerulonephritis-susceptible and -resistant rat strains. Genes Immun (2010) 0.83
Impact of Mycobacterium tuberculosis RD1-locus on human primary dendritic cell immune functions. Sci Rep (2015) 0.82
Novel insights into Notum and glypicans regulation in colorectal cancer. Oncotarget (2015) 0.82
Adjunctive dexamethasone affects the expression of genes related to inflammation, neurogenesis and apoptosis in infant rat pneumococcal meningitis. PLoS One (2011) 0.81
T-cell activation and early gene response in dogs. PLoS One (2015) 0.79
Apoptosis induced by piroxicam plus cisplatin combined treatment is triggered by p21 in mesothelioma. PLoS One (2011) 0.79
Profiling, Bioinformatic, and Functional Data on the Developing Olfactory/GnRH System Reveal Cellular and Molecular Pathways Essential for This Process and Potentially Relevant for the Kallmann Syndrome. Front Endocrinol (Lausanne) (2013) 0.78
Oncoantigens for an immune prevention of cancer. Am J Cancer Res (2010) 0.78
The chromatin Remodeler CHD8 is required for activation of progesterone receptor-dependent enhancers. PLoS Genet (2015) 0.78
Next-generation sequencing analysis of miRNA expression in control and FSHD myogenesis. PLoS One (2014) 0.77
Advancements in RNASeqGUI towards a Reproducible Analysis of RNA-Seq Experiments. Biomed Res Int (2016) 0.77
HMG20A is required for SNAI1-mediated epithelial to mesenchymal transition. Oncogene (2015) 0.77
Whole Blood Gene Expression Profiling in Preclinical and Clinical Cattle Infected with Atypical Bovine Spongiform Encephalopathy. PLoS One (2016) 0.76
Transcriptome Analysis on Monocytes from Patients with Neovascular Age-Related Macular Degeneration. Sci Rep (2016) 0.76
A hypoxic signature marks tumors formed by disseminated tumor cells in the BALB-neuT mammary cancer model. Oncotarget (2016) 0.76
Oxidative stress controls the choice of alternative last exons via a Brahma-BRCA1-CstF pathway. Nucleic Acids Res (2016) 0.75
Genomic data on breast cancer transcript profile modulation by 17beta-hydroxysteroid dehydrogenase type 1 and 17-beta-estradiol. Data Brief (2016) 0.75
Network Analysis-Based Approach for Exploring the Potential Diagnostic Biomarkers of Acute Myocardial Infarction. Front Physiol (2016) 0.75
Microarray Я US: a user-friendly graphical interface to Bioconductor tools that enables accurate microarray data analysis and expedites comprehensive functional analysis of microarray results. BMC Res Notes (2012) 0.75
Transcriptome analysis of human ageing in male skin shows mid-life period of variability and central role of NF-κB. Sci Rep (2016) 0.75
Mesenchymal stem cell-derived microvesicles protect against acute tubular injury. J Am Soc Nephrol (2009) 5.01
State of art fusion-finder algorithms are suitable to detect transcription-induced chimeras in normal tissues? BMC Bioinformatics (2013) 1.45
Selection of suitable reference genes for accurate normalization of gene expression profile studies in non-small cell lung cancer. BMC Cancer (2006) 1.37
State-of-the-art fusion-finder algorithms sensitivity and specificity. Biomed Res Int (2013) 1.35
Dissecting an alternative splicing analysis workflow for GeneChip Exon 1.0 ST Affymetrix arrays. BMC Genomics (2008) 1.25
The human MDM2 oncoprotein increases the transcriptional activity and the protein level of the p53 homolog p63. J Biol Chem (2001) 1.22
Non-small cell lung cancer exhibits transcript overexpression of genes associated with homologous recombination and DNA replication pathways. Cancer Res (2009) 1.12
Global gene expression profiling of human pleural mesotheliomas: identification of matrix metalloproteinase 14 (MMP-14) as potential tumour target. PLoS One (2009) 1.05
Microarray data analysis and mining approaches. Brief Funct Genomic Proteomic (2008) 1.02
RAP: RNA-Seq Analysis Pipeline, a new cloud-based NGS web application. BMC Genomics (2015) 1.01
The noninflammatory role of high mobility group box 1/Toll-like receptor 2 axis in the self-renewal of mammary cancer stem cells. FASEB J (2013) 0.99
Comparative gene expression profiling reveals partially overlapping but distinct genomic actions of different antiestrogens in human breast cancer cells. J Cell Biochem (2006) 0.98
Optimizing a massive parallel sequencing workflow for quantitative miRNA expression analysis. PLoS One (2012) 0.97
Genome-wide activity of unliganded estrogen receptor-α in breast cancer cells. Proc Natl Acad Sci U S A (2014) 0.95
Oxysterol-induced up-regulation of MCP-1 expression and synthesis in macrophage cells. Free Radic Biol Med (2005) 0.94
Learning from nature: pregnancy changes the expression of inflammation-related genes in patients with multiple sclerosis. PLoS One (2010) 0.92
miR-135b coordinates progression of ErbB2-driven mammary carcinomas through suppression of MID1 and MTCH2. Am J Pathol (2013) 0.90
Combinatorial pooling enables selective sequencing of the barley gene space. PLoS Comput Biol (2013) 0.88
An integrated approach of immunogenomics and bioinformatics to identify new Tumor Associated Antigens (TAA) for mammary cancer immunological prevention. BMC Bioinformatics (2005) 0.88
Inflammation and breast cancer. Inflammatory component of mammary carcinogenesis in ErbB2 transgenic mice. Breast Cancer Res (2007) 0.87
Mutant SOD1 and mitochondrial damage alter expression and splicing of genes controlling neuritogenesis in models of neurodegeneration. Hum Mutat (2011) 0.86
Involvement of inflammatory chemokines in survival of human monocytes fed with malarial pigment. Infect Immun (2010) 0.85
Critical roles for Rictor/Sin1 complexes in interferon-dependent gene transcription and generation of antiproliferative responses. J Biol Chem (2014) 0.84
The Hay Wells syndrome-derived TAp63alphaQ540L mutant has impaired transcriptional and cell growth regulatory activity. Cell Cycle (2006) 0.84
Regulation of leukemic cell differentiation and retinoid-induced gene expression by statins. Mol Cancer Ther (2009) 0.83
Microarray probe expression measures, data normalization and statistical validation. Comp Funct Genomics (2003) 0.83
Conjugated linoleic acid alters global gene expression in human intestinal-like Caco-2 cells in an isomer-specific manner. J Nutr (2007) 0.82
Alternative splicing detection workflow needs a careful combination of sample prep and bioinformatics analysis. BMC Bioinformatics (2015) 0.81
Recombinant human lactoferrin induces human and mouse dendritic cell maturation via Toll-like receptors 2 and 4. FASEB J (2013) 0.80
Mimicking p14ARF phosphorylation influences its ability to restrain cell proliferation. PLoS One (2013) 0.80
Genomic lens on neuroglobin transcription. IUBMB Life (2014) 0.79
Transcriptional profiling of endometriosis tissues identifies genes related to organogenesis defects. J Cell Physiol (2013) 0.79
Apoptosis induced by piroxicam plus cisplatin combined treatment is triggered by p21 in mesothelioma. PLoS One (2011) 0.79
A versatile mathematical work-flow to explore how Cancer Stem Cell fate influences tumor progression. BMC Syst Biol (2015) 0.78
Immune prevention of mammary carcinogenesis in HER-2/neu transgenic mice: a microarray scenario. Cancer Immunol Immunother (2005) 0.78
Large disclosing the nature of computational tools for the analysis of next generation sequencing data. Curr Top Med Chem (2012) 0.78
Atorvastatin modulates anti-proliferative and pro-proliferative signals in Her2/neu-positive mammary cancer. Biochem Pharmacol (2011) 0.77
Functional and pharmacodynamic evaluation of metronomic cyclophosphamide and docetaxel regimen in castration-resistant prostate cancer. Future Oncol (2013) 0.76
Microarray data analysis and mining. Methods Mol Med (2004) 0.75
Restructuring the gene ontology to emphasise regulative pathways and to improve gene similarity queries. Int J Comput Biol Drug Des (2011) 0.75
Intelligent informatics in biomedicine. Biomed Res Int (2013) 0.75