Published in Toxicol Sci on January 11, 2010
Molecular signatures from omics data: from chaos to consensus. Biotechnol J (2012) 1.17
Metabolomics reveals target and off-target toxicities of a model organophosphate pesticide to roach (Rutilus rutilus): implications for biomonitoring. Environ Sci Technol (2011) 0.91
CASMI-The Small Molecule Identification Process from a Birmingham Perspective. Metabolites (2013) 0.89
ADEMA: an algorithm to determine expected metabolite level alterations using mutual information. PLoS Comput Biol (2013) 0.83
Metabolic profiling in Caenorhabditis elegans provides an unbiased approach to investigations of dosage dependent lead toxicity. Metabolomics (2012) 0.82
Earthworm metabolomic responses after exposure to aged PCB contaminated soils. Ecotoxicology (2012) 0.82
1H NMR metabolomics of earthworm responses to polychlorinated biphenyl (PCB) exposure in soil. Ecotoxicology (2011) 0.78
A three step network based approach (TSNBA) to finding disease molecular signature and key regulators: a case study of IL-1 and TNF-alpha stimulated inflammation. PLoS One (2014) 0.77
Muscling mussels: metabolomic evaluation of toxicity. Toxicol Sci (2010) 0.76
Annual variation in the levels of transcripts of sex-specific genes in the mantle of the common mussel, Mytilus edulis. PLoS One (2012) 0.75
Proposed minimum reporting standards for chemical analysis Chemical Analysis Working Group (CAWG) Metabolomics Standards Initiative (MSI). Metabolomics (2007) 6.93
Bayesian variable selection in multinomial probit models to identify molecular signatures of disease stage. Biometrics (2004) 4.71
GALGO: an R package for multivariate variable selection using genetic algorithms. Bioinformatics (2006) 3.54
Early rheumatoid arthritis is characterized by a distinct and transient synovial fluid cytokine profile of T cell and stromal cell origin. Arthritis Res Ther (2005) 3.17
A Bayesian approach to reconstructing genetic regulatory networks with hidden factors. Bioinformatics (2004) 2.38
Dosage compensation in the mouse balances up-regulation and silencing of X-linked genes. PLoS Biol (2007) 2.06
Modeling T-cell activation using gene expression profiling and state-space models. Bioinformatics (2004) 2.02
High-throughput tissue extraction protocol for NMR- and MS-based metabolomics. Anal Biochem (2007) 1.97
Different proliferative potential and migratory characteristics of human CD4+ regulatory T cells that express either CD45RA or CD45RO. J Immunol (2010) 1.66
Multiplex bead immunoassay analysis of aqueous humor reveals distinct cytokine profiles in uveitis. Invest Ophthalmol Vis Sci (2005) 1.61
Biomarker discovery in microarray gene expression data with Gaussian processes. Bioinformatics (2005) 1.59
Global gene expression profiles in fibroblasts from synovial, skin and lymphoid tissue reveals distinct cytokine and chemokine expression patterns. Thromb Haemost (2003) 1.55
Optimized metabolite extraction from blood serum for 1H nuclear magnetic resonance spectroscopy. Anal Biochem (2008) 1.51
Regulators encoded in the Escherichia coli type III secretion system 2 gene cluster influence expression of genes within the locus for enterocyte effacement in enterohemorrhagic E. coli O157:H7. Infect Immun (2004) 1.49
Global transcriptional response to vancomycin in Mycobacterium tuberculosis. Microbiology (2009) 1.46
Structure and function of BamE within the outer membrane and the β-barrel assembly machine. EMBO Rep (2011) 1.45
Improved classification accuracy in 1- and 2-dimensional NMR metabolomics data using the variance stabilising generalised logarithm transformation. BMC Bioinformatics (2007) 1.41
DNA microarrays: a powerful genomic tool for biomedical and clinical research. Mol Med (2007) 1.38
Germinal center B cells govern their own fate via antibody feedback. J Exp Med (2013) 1.36
Fumarate is cardioprotective via activation of the Nrf2 antioxidant pathway. Cell Metab (2012) 1.35
The role of reporting standards for metabolite annotation and identification in metabolomic studies. Gigascience (2013) 1.31
Spectral relative standard deviation: a practical benchmark in metabolomics. Analyst (2008) 1.30
Metabolomic profiling of drug responses in acute myeloid leukaemia cell lines. PLoS One (2009) 1.28
Effects of temperature on host-pathogen-drug interactions in red abalone, Haliotis rufescens, determined by 1H NMR metabolomics. Environ Sci Technol (2006) 1.25
Relative overexpression of X-linked genes in mouse embryonic stem cells is consistent with Ohno's hypothesis. Nat Genet (2011) 1.22
Direct sampling of organisms from the field and knowledge of their phenotype: key recommendations for environmental metabolomics. Environ Sci Technol (2007) 1.18
Deletion of hexose-6-phosphate dehydrogenase activates the unfolded protein response pathway and induces skeletal myopathy. J Biol Chem (2008) 1.18
Two-dimensional J-resolved NMR spectroscopy: review of a key methodology in the metabolomics toolbox. Phytochem Anal (2009) 1.18
A signal filtering method for improved quantification and noise discrimination in fourier transform ion cyclotron resonance mass spectrometry-based metabolomics data. J Am Soc Mass Spectrom (2009) 1.17
Synovial fluid leukocyte apoptosis is inhibited in patients with very early rheumatoid arthritis. Arthritis Res Ther (2006) 1.16
A systems biology approach identifies molecular networks defining skeletal muscle abnormalities in chronic obstructive pulmonary disease. PLoS Comput Biol (2011) 1.13
NMR-based metabolomic analysis of cerebrospinal fluid and serum in neurological diseases--a diagnostic tool? NMR Biomed (2010) 1.10
Silver nanowire exposure results in internalization and toxicity to Daphnia magna. ACS Nano (2013) 1.05
Characterization of isotopic abundance measurements in high resolution FT-ICR and Orbitrap mass spectra for improved confidence of metabolite identification. Anal Chem (2011) 1.04
Combined bezafibrate and medroxyprogesterone acetate: potential novel therapy for acute myeloid leukaemia. PLoS One (2009) 1.03
Discrimination models using variance-stabilizing transformation of metabolomic NMR data. OMICS (2004) 1.01
Knowledge management for systems biology a general and visually driven framework applied to translational medicine. BMC Syst Biol (2011) 1.01
Hypoxia triggers major metabolic changes in AML cells without altering indomethacin-induced TCA cycle deregulation. ACS Chem Biol (2010) 1.01
Improved identification of metabolites in complex mixtures using HSQC NMR spectroscopy. Anal Chim Acta (2008) 1.00
Metabolomic analysis of human vitreous humor differentiates ocular inflammatory disease. Mol Vis (2009) 0.99
Identification of VDR-responsive gene signatures in breast cancer cells. Oncology (2007) 0.99
The impact of inflammation on metabolomic profiles in patients with arthritis. Arthritis Rheum (2013) 0.97
(1)H NMR metabolomics reveals contrasting response by male and female mussels exposed to reduced seawater pH, increased temperature, and a pathogen. Environ Sci Technol (2014) 0.96
A computational framework for gene regulatory network inference that combines multiple methods and datasets. BMC Syst Biol (2011) 0.96
Effects of the application of different window functions and projection methods on processing of 1H J-resolved nuclear magnetic resonance spectra for metabolomics. Anal Chim Acta (2008) 0.95
Metabolic changes in flatfish hepatic tumours revealed by NMR-based metabolomics and metabolic correlation networks. J Proteome Res (2008) 0.95
The COPD Knowledge Base: enabling data analysis and computational simulation in translational COPD research. J Transl Med (2014) 0.95
Metabolomics of microliter hemolymph samples enables an improved understanding of the combined metabolic and transcriptional responses of Daphnia magna to cadmium. Environ Sci Technol (2011) 0.94
Integrating omic technologies into aquatic ecological risk assessment and environmental monitoring: hurdles, achievements, and future outlook. Environ Health Perspect (2010) 0.93
Muscle and blood redox status after exercise training in severe COPD patients. Free Radic Biol Med (2011) 0.92
Aggregation and dispersion of silver nanoparticles in exposure media for aquatic toxicity tests. J Chromatogr A (2011) 0.91
Metabolomics reveals target and off-target toxicities of a model organophosphate pesticide to roach (Rutilus rutilus): implications for biomonitoring. Environ Sci Technol (2011) 0.91
Reverse engineering adverse outcome pathways. Environ Toxicol Chem (2011) 0.90
Hepatic transcriptomic and metabolomic responses in the stickleback (Gasterosteus aculeatus) exposed to environmentally relevant concentrations of dibenzanthracene. Environ Sci Technol (2009) 0.89
Transcriptomic responses of European flounder (Platichthys flesus) to model toxicants. Aquat Toxicol (2008) 0.89
A systems biology approach sheds new light on Escherichia coli acid resistance. Nucleic Acids Res (2011) 0.89
Identifying health impacts of exposure to copper using transcriptomics and metabolomics in a fish model. Environ Sci Technol (2010) 0.89
Biomarkers of whale shark health: a metabolomic approach. PLoS One (2012) 0.87
Hepatic transcriptomic and metabolomic responses in the Stickleback (Gasterosteus aculeatus) exposed to ethinyl-estradiol. Aquat Toxicol (2009) 0.87
A genome-wide transcriptional analysis of producer and non-producer NS0 myeloma cell lines. Biotechnol Appl Biochem (2007) 0.86
Analysis of normal-tumour tissue interaction in tumours: prediction of prostate cancer features from the molecular profile of adjacent normal cells. PLoS One (2011) 0.86
The experimental renal cell carcinoma model in the chick embryo. Angiogenesis (2012) 0.86
Gene expression networks underlying ovarian development in wild largemouth bass (Micropterus salmoides). PLoS One (2013) 0.86
Application of metabolomics to investigate the process of human orthotopic liver transplantation: a proof-of-principle study. OMICS (2010) 0.85
Ribosomal proteins' association with transcription sites peaks at tRNA genes in Schizosaccharomyces pombe. RNA (2011) 0.84
MaConDa: a publicly accessible mass spectrometry contaminants database. Bioinformatics (2012) 0.84
Systems Medicine: from molecular features and models to the clinic in COPD. J Transl Med (2014) 0.84
Elevated FOSB-expression; a potential marker of valproate sensitivity in AML. Br J Haematol (2008) 0.83
Towards a system level understanding of non-model organisms sampled from the environment: a network biology approach. PLoS Comput Biol (2011) 0.83
Identification and pathway mapping of furan target proteins reveal mitochondrial energy production and redox regulation as critical targets of furan toxicity. Toxicol Sci (2012) 0.82
Analysis of host response to bacterial infection using error model based gene expression microarray experiments. Nucleic Acids Res (2005) 0.82
Knowledge transfer initiative between molecular biologists and environmental researchers and regulators. Environ Sci Pollut Res Int (2007) 0.82
Line-shape analysis of J-resolved NMR spectra: application to metabolomics and quantification of intensity errors from signal processing and high signal congestion. Magn Reson Chem (2009) 0.82
Discriminating between different acute chemical toxicities via changes in the daphnid metabolome. Toxicol Sci (2010) 0.81
Functional modules integrating essential cellular functions are predictive of the response of leukaemia cells to DNA damage. Bioinformatics (2008) 0.81
Chronic Obstructive Pulmonary Disease heterogeneity: challenges for health risk assessment, stratification and management. J Transl Med (2014) 0.81
A stable-isotope mass spectrometry-based metabolic footprinting approach to analyze exudates from phytoplankton. Mar Drugs (2013) 0.80
Comparison of histological, genetic, metabolomics, and lipid-based methods for sex determination in marine mussels. Anal Biochem (2007) 0.80
Disruption of DNA methylation via S-adenosylhomocysteine is a key process in high incidence liver carcinogenesis in fish. J Proteome Res (2013) 0.80
Molecular toxicity identification evaluation (mTIE) approach predicts chemical exposure in Daphnia magna. Environ Sci Technol (2013) 0.79
Over-expression of hTERT in CHO K1 results in decreased apoptosis and reduced serum dependency. J Biotechnol (2005) 0.79
Infection of bovine dendritic cells by rinderpest or measles viruses induces different changes in host transcription. Virology (2009) 0.79
Analysis of time course 1H NMR metabolomics data by multivariate curve resolution. Magn Reson Chem (2009) 0.79
Water pentamer: characterization of the torsional-puckering manifold by terahertz VRT spectroscopy. J Phys Chem A (2005) 0.79
Characterization of the metabolic actions of crude versus dispersed oil in salmon smolts via NMR-based metabolomics. Aquat Toxicol (2009) 0.78
Metabolic responses produced by crude versus dispersed oil in Chinook salmon pre-smolts via NMR-based metabolomics. Ecotoxicol Environ Saf (2010) 0.78
Unresolved complex mixtures of aromatic hydrocarbons: thousands of overlooked persistent, bioaccumulative, and toxic contaminants in mussels. Environ Sci Technol (2007) 0.78
HAMMER: automated operation of mass frontier to construct in silico mass spectral fragmentation libraries. Bioinformatics (2013) 0.78
COMPADRE: an R and web resource for pathway activity analysis by component decompositions. Bioinformatics (2012) 0.78
Behavioural responses of estuarine mysids to hypoxia and disruption by cadmium. Mar Environ Res (2002) 0.77
The critical importance of defined media conditions in Daphnia magna nanotoxicity studies. Toxicol Lett (2013) 0.77
Gene signatures in wound tissue as evidenced by molecular profiling in the chick embryo model. BMC Genomics (2010) 0.77