Published in BMC Bioinformatics on June 21, 2002
Estimating accuracy of RNA-Seq and microarrays with proteomics. BMC Genomics (2009) 3.87
Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data. BMC Bioinformatics (2006) 3.31
Gene expression levels assessed by oligonucleotide microarray analysis and quantitative real-time RT-PCR -- how well do they correlate? BMC Genomics (2005) 2.76
Kidney transplant rejection and tissue injury by gene profiling of biopsies and peripheral blood lymphocytes. Am J Transplant (2004) 2.35
Ranked prediction of p53 targets using hidden variable dynamic modeling. Genome Biol (2006) 1.78
A power law global error model for the identification of differentially expressed genes in microarray data. BMC Bioinformatics (2004) 1.56
Comparison of molecular signatures from multiple skin diseases identifies mechanisms of immunopathogenesis. J Invest Dermatol (2014) 1.56
Resolution of large and small differences in gene expression using models for the Bayesian analysis of gene expression levels and spotted DNA microarrays. BMC Bioinformatics (2004) 1.43
The histone chaperone anti-silencing function 1 is a global regulator of transcription independent of passage through S phase. Mol Cell Biol (2005) 1.27
A weighted average difference method for detecting differentially expressed genes from microarray data. Algorithms Mol Biol (2008) 1.27
Link-based quantitative methods to identify differentially coexpressed genes and gene pairs. BMC Bioinformatics (2011) 1.19
Amplified RNA degradation in T7-amplification methods results in biased microarray hybridizations. BMC Genomics (2003) 1.16
A novel significance score for gene selection and ranking. Bioinformatics (2012) 1.14
Power analysis and sample size estimation for RNA-Seq differential expression. RNA (2014) 1.12
Expression profiling of rice segregating for drought tolerance QTLs using a rice genome array. Funct Integr Genomics (2004) 1.09
Aging-induced alterations in gene transcripts and functional activity of mitochondrial oxidative phosphorylation complexes in the heart. Mech Ageing Dev (2008) 1.02
Microarray analysis of relative gene expression stability for selection of internal reference genes in the rhesus macaque brain. BMC Mol Biol (2010) 1.02
Data perturbation independent diagnosis and validation of breast cancer subtypes using clustering and patterns. Cancer Inform (2007) 1.00
Accuracy of cDNA microarray methods to detect small gene expression changes induced by neuregulin on breast epithelial cells. BMC Bioinformatics (2004) 0.99
Transcriptional profiling of trait deterioration in the insect pathogenic nematode Heterorhabditis bacteriophora. BMC Genomics (2009) 0.98
Cytoskeletal rearrangements in synovial fibroblasts as a novel pathophysiological determinant of modeled rheumatoid arthritis. PLoS Genet (2005) 0.97
Dietary effects of arachidonate-rich fungal oil and fish oil on murine hepatic and hippocampal gene expression. Lipids Health Dis (2002) 0.94
Effects of DHA-rich n-3 fatty acid supplementation on gene expression in blood mononuclear leukocytes: the OmegAD study. PLoS One (2012) 0.93
Gene expression profiling in the rhesus macaque: methodology, annotation and data interpretation. Methods (2009) 0.89
How dietary arachidonic- and docosahexaenoic- acid rich oils differentially affect the murine hepatic transcriptome. Lipids Health Dis (2006) 0.89
Dysregulation of gene expression within the peroxisome proliferator activated receptor pathway in morbidly obese patients. Surg Endosc (2008) 0.85
Statistical analysis of differential gene expression relative to a fold change threshold on NanoString data of mouse odorant receptor genes. BMC Bioinformatics (2014) 0.84
Noise filtering and nonparametric analysis of microarray data underscores discriminating markers of oral, prostate, lung, ovarian and breast cancer. BMC Bioinformatics (2004) 0.81
Sexually dimorphic gene expression that overlaps maturation of type II pneumonocytes in fetal mouse lungs. Reprod Biol Endocrinol (2006) 0.80
Identification of reproducible drug-resistance-related dysregulated genes in small-scale cancer cell line experiments. Sci Rep (2015) 0.79
Biomaterials selectively modulate interactions between human blood-derived polymorphonuclear leukocytes and monocytes. Am J Pathol (2013) 0.78
Altered expression of immune-related genes in children with Down syndrome. PLoS One (2014) 0.78
Integrative topological analysis of mass spectrometry data reveals molecular features with clinical relevance in esophageal squamous cell carcinoma. Sci Rep (2016) 0.78
A whole-genome microarray study of Arabidopsis thaliana semisolid callus cultures exposed to microgravity and nonmicrogravity related spaceflight conditions for 5 days on board of Shenzhou 8. Biomed Res Int (2015) 0.77
Differential co-expression and regulation analyses reveal different mechanisms underlying major depressive disorder and subsyndromal symptomatic depression. BMC Bioinformatics (2015) 0.77
Microarray analysis of cell cycle gene expression in adult human corneal endothelial cells. PLoS One (2014) 0.76
Temporal patterns of gene expression during calyx of held development. Dev Neurobiol (2015) 0.76
Seq-ing improved gene expression estimates from microarrays using machine learning. BMC Bioinformatics (2015) 0.76
A cultured approach to canine urothelial carcinoma: molecular characterization of five cell lines. Canine Genet Epidemiol (2015) 0.75
Identification and Validation of a Potential Marker of Tissue Quality Using Gene Expression Analysis of Human Colorectal Tissue. PLoS One (2015) 0.75
Transcriptome profiling and pathway analysis of genes expressed differentially in participants with or without a positive response to topiramate treatment for methamphetamine addiction. BMC Med Genomics (2014) 0.75
Transcriptome profiling of Arabian horse blood during training regimens. BMC Genet (2017) 0.75
BCA2/Rabring7 Interferes with HIV-1 Proviral Transcription by Enhancing the SUMOylation of IκBα. J Virol (2017) 0.75
Identifying genes relevant to specific biological conditions in time course microarray experiments. PLoS One (2013) 0.75
Identification of crucial microRNAs and genes in hypoxia-induced human lung adenocarcinoma cells. Onco Targets Ther (2016) 0.75
Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci U S A (1998) 192.97
Exploring the metabolic and genetic control of gene expression on a genomic scale. Science (1997) 60.15
Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation. Proc Natl Acad Sci U S A (1999) 39.79
Computational analysis of microarray data. Nat Rev Genet (2001) 18.93
A Bayesian framework for the analysis of microarray expression data: regularized t -test and statistical inferences of gene changes. Bioinformatics (2001) 16.47
Light-generated oligonucleotide arrays for rapid DNA sequence analysis. Proc Natl Acad Sci U S A (1994) 9.59
Gene expression profile of aging and its retardation by caloric restriction. Science (1999) 8.06
Expression analysis with oligonucleotide microarrays reveals that MYC regulates genes involved in growth, cell cycle, signaling, and adhesion. Proc Natl Acad Sci U S A (2000) 6.30
Microarrays: handling the deluge of data and extracting reliable information. Trends Biotechnol (2001) 4.38
Influences of aging and caloric restriction on the transcriptional profile of skeletal muscle from rhesus monkeys. Proc Natl Acad Sci U S A (2001) 3.63
Gene expression data analysis. FEBS Lett (2000) 3.19
An efficient and robust statistical modeling approach to discover differentially expressed genes using genomic expression profiles. Genome Res (2001) 2.63
Computational methods for the identification of differential and coordinated gene expression. Hum Mol Genet (1999) 2.43
Effects of p21Waf1/Cip1/Sdi1 on cellular gene expression: implications for carcinogenesis, senescence, and age-related diseases. Proc Natl Acad Sci U S A (2000) 2.43
Validation of array-based gene expression profiles by real-time (kinetic) RT-PCR. J Mol Diagn (2001) 2.40
Genome-wide study of aging and oxidative stress response in Drosophila melanogaster. Proc Natl Acad Sci U S A (2000) 2.39
Gonadotropin-releasing hormone receptor-coupled gene network organization. J Biol Chem (2001) 2.01
Analysis of mucosal gene expression in inflammatory bowel disease by parallel oligonucleotide arrays. Physiol Genomics (2000) 1.68
Identifying differentially expressed genes in cDNA microarray experiments. J Comput Biol (2001) 1.61
Gene microarray identification of redox and mitochondrial elements that control resistance or sensitivity to apoptosis. Proc Natl Acad Sci U S A (2000) 1.60
A fuzzy logic approach to analyzing gene expression data. Physiol Genomics (2000) 1.54
The peroxisome proliferator-activated receptor alpha regulates amino acid metabolism. FASEB J (2001) 1.45
Identification of novel cytokine-induced genes in pancreatic beta-cells by high-density oligonucleotide arrays. Diabetes (2001) 1.43
Ligand assays: from electrophoresis to miniaturized microarrays. Clin Chem (1998) 1.32
Monitoring expression of genes involved in drug metabolism and toxicology using DNA microarrays. Physiol Genomics (2001) 1.20
Microarray analysis detects novel Pax3 downstream target genes. J Biol Chem (2001) 1.11
Rapid quantification of human ABCA1 mRNA in various cell types and tissues by real-time reverse transcription-PCR. Clin Chem (2001) 1.02
Photolithographic synthesis of high-density oligonucleotide probe arrays. Nucleosides Nucleotides Nucleic Acids (2001) 1.01
Human disease characterization: real-time quantitative PCR analysis of gene expression. Drug Discov Today (2001) 0.82
Metabolomic profiles delineate potential role for sarcosine in prostate cancer progression. Nature (2009) 12.58
Analysis of the adult human plasma metabolome. Pharmacogenomics (2008) 3.74
Germ-free C57BL/6J mice are resistant to high-fat-diet-induced insulin resistance and have altered cholesterol metabolism. FASEB J (2010) 2.19
Both free and esterified plant sterols reduce cholesterol absorption and the bioavailability of beta-carotene and alpha-tocopherol in normocholesterolemic humans. Am J Clin Nutr (2004) 1.64
The small molecule GMX1778 is a potent inhibitor of NAD+ biosynthesis: strategy for enhanced therapy in nicotinic acid phosphoribosyltransferase 1-deficient tumors. Mol Cell Biol (2009) 1.60
Metabolic response to iron deficiency in Saccharomyces cerevisiae. J Biol Chem (2010) 1.43
Neonatal antibiotic treatment alters gastrointestinal tract developmental gene expression and intestinal barrier transcriptome. Physiol Genomics (2005) 1.26
Metabolomic profiling can predict which humans will develop liver dysfunction when deprived of dietary choline. FASEB J (2010) 1.18
Lactobacillus paracasei normalizes muscle hypercontractility in a murine model of postinfective gut dysfunction. Gastroenterology (2004) 1.17
Early hepatic insulin resistance in mice: a metabolomics analysis. Mol Endocrinol (2010) 1.11
Evidence of health benefits of canola oil. Nutr Rev (2013) 1.08
Liver X receptor preferentially activates de novo lipogenesis in human preadipocytes. Biochimie (2005) 1.04
Genomics and metabolomics as markers for the interaction of diet and health: lessons from lipids. J Nutr (2003) 1.02
Novel markers of the human follicle-associated epithelium identified by genomic profiling and microdissection. Gastroenterology (2005) 1.00
Effects of mainstream cigarette smoke on the global metabolome of human lung epithelial cells. Chem Res Toxicol (2009) 0.97
Transcriptome and translational signaling following endurance exercise in trained skeletal muscle: impact of dietary protein. Physiol Genomics (2011) 0.97
Multifaceted transcriptional regulation of the murine intestinal mucus layer by endogenous microbiota. Genomics (2007) 0.93
The Global Error Assessment (GEA) model for the selection of differentially expressed genes in microarray data. Bioinformatics (2004) 0.91
Time-resolved quantitative proteome analysis of in vivo intestinal development. Mol Cell Proteomics (2010) 0.90
Meal effect on magnesium bioavailability from mineral water in healthy women. Am J Clin Nutr (2002) 0.89
Personal metabolomics as a next generation nutritional assessment. J Nutr (2003) 0.88
Chronic wound healing by fetal cell therapy may be explained by differential gene profiling observed in fetal versus old skin cells. Exp Gerontol (2008) 0.88
Multi-targeted mechanisms underlying the endothelial protective effects of the diabetic-safe sweetener erythritol. PLoS One (2013) 0.88
When machine tastes coffee: instrumental approach to predict the sensory profile of espresso coffee. Anal Chem (2008) 0.86
Long-term cultured human myotubes decrease contractile gene expression and regulate apoptosis-related genes. Gene (2006) 0.86
Regional variations in ABC transporter expression along the mouse intestinal tract. Physiol Genomics (2004) 0.85
Changes in the transcriptional profile of transporters in the intestine along the anterior-posterior and crypt-villus axes. BMC Genomics (2005) 0.85
Dietary fat induces sustained reward response in the human brain without primary taste cortex discrimination. Front Hum Neurosci (2013) 0.83
Non-esterified plant sterols solubilized in low fat milks inhibit cholesterol absorption--a stable isotope double-blind crossover study. Eur J Nutr (2003) 0.83
Influence of gut microbiota on mouse B2 B cell ontogeny and function. Mol Immunol (2011) 0.83
Effects of consumption of sucromalt, a slowly digestible carbohydrate, on mental and physical energy questionnaire responses. Nutr Neurosci (2012) 0.82
Nutrigenomic approach to understanding the mechanisms by which dietary long-chain fatty acids induce gene signals and control mechanisms involved in carcinogenesis. Nutrition (2004) 0.82
An integrative metabolism approach identifies stearoyl-CoA desaturase as a target for an arachidonate-enriched diet. FASEB J (2005) 0.81
The potential of metabolomic approaches for investigating mode(s) of action of xenobiotics: case study with carbon tetrachloride. Mutat Res (2010) 0.81
Cold-temperature stability of five beta-lactam antibiotics in bovine milk and milk extracts prepared for liquid chromatography-electrospray ionization tandem mass spectrometry analysis. J Chromatogr A (2004) 0.81
Phospholipids from herring roe improve plasma lipids and glucose tolerance in healthy, young adults. Lipids Health Dis (2014) 0.81
The proportion of lycopene isomers in human plasma is modulated by lycopene isomer profile in the meal but not by lycopene preparation. Br J Nutr (2011) 0.81
Effects of increase in fish oil intake on intestinal eicosanoids and inflammation in a mouse model of colitis. Lipids Health Dis (2013) 0.80
Hepatic cytochrome P-450 reductase-null mice show reduced transcriptional response to quercetin and reveal physiological homeostasis between jejunum and liver. Am J Physiol Gastrointest Liver Physiol (2006) 0.80
Sodium-dependent vitamin C transporter isoforms in skin: Distribution, kinetics, and effect of UVB-induced oxidative stress. Free Radic Biol Med (2007) 0.80
Generation of 4-hydroxy-2,5-dimethyl-3(2H)-furanone from rhamnose as affected by reaction parameters: experimental design approach. J Agric Food Chem (2009) 0.78
Unraveling lipid metabolism with microarrays: effects of arachidonate and docosahexaenoate acid on murine hepatic and hippocampal gene expression. Genome Biol (2002) 0.78
Model studies on the release of aroma compounds from structured and nonstructured oil systems using proton-transfer reaction mass spectrometry. J Agric Food Chem (2007) 0.78
Mechanisms of weight maintenance under high- and low-protein, low-glycaemic index diets. Mol Nutr Food Res (2011) 0.78
Predictive relationship between polyphenol and nonfat cocoa solids content of chocolate. J Agric Food Chem (2007) 0.78
Characterization and biological activity of gangliosides in buffalo milk. Biochim Biophys Acta (2003) 0.76
Effects of erythritol on endothelial function in patients with type 2 diabetes mellitus: a pilot study. Acta Diabetol (2013) 0.75
Consequences of exchanging carbohydrates for proteins in the cholesterol metabolism of mice fed a high-fat diet. PLoS One (2012) 0.75
A holistic approach towards defined product attributes by Maillard-type food processing. Food Funct (2013) 0.75
Interactions between volatile and nonvolatile coffee components. 1. Screening of nonvolatile components. J Agric Food Chem (2005) 0.75