Published in Bioinformatics on June 17, 2011
Normalization and statistical analysis of multiplexed bead-based immunoassay data using mixed-effects modeling. Mol Cell Proteomics (2012) 0.93
High-resolution genome-wide scan of genes, gene-networks and cellular systems impacting the yeast ionome. BMC Genomics (2012) 0.85
A targeted RNAi screen identifies factors affecting diverse stages of receptor-mediated transcytosis. J Cell Biol (2017) 0.75
A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics (2003) 82.89
Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res (2002) 40.03
Capturing heterogeneity in gene expression studies by surrogate variable analysis. PLoS Genet (2007) 12.08
Tackling the widespread and critical impact of batch effects in high-throughput data. Nat Rev Genet (2010) 11.82
Assessing gene significance from cDNA microarray expression data via mixed models. J Comput Biol (2001) 10.38
Statistical practice in high-throughput screening data analysis. Nat Biotechnol (2006) 5.85
Exploring genetic interactions and networks with yeast. Nat Rev Genet (2007) 5.67
Protein networks in disease. Genome Res (2008) 5.65
Statistical methods for analysis of high-throughput RNA interference screens. Nat Methods (2009) 4.76
A strategy for extracting and analyzing large-scale quantitative epistatic interaction data. Genome Biol (2006) 4.49
The yeast secretory pathway is perturbed by mutations in PMR1, a member of a Ca2+ ATPase family. Cell (1989) 4.19
Analysis of cell-based RNAi screens. Genome Biol (2006) 3.99
The art and design of genetic screens: RNA interference. Nat Rev Genet (2008) 3.11
Quantitative analysis of fitness and genetic interactions in yeast on a genome scale. Nat Methods (2010) 2.67
Applying mass spectrometry-based proteomics to genetics, genomics and network biology. Nat Rev Genet (2009) 2.44
Ionomics and the study of the plant ionome. Annu Rev Plant Biol (2008) 2.21
The art and design of genetic screens: yeast. Nat Rev Genet (2001) 1.92
Characterization of the yeast ionome: a genome-wide analysis of nutrient mineral and trace element homeostasis in Saccharomyces cerevisiae. Genome Biol (2005) 1.70
Comparison of microarray designs for class comparison and class discovery. Bioinformatics (2002) 1.51
Negative control of heavy metal uptake by the Saccharomyces cerevisiae BSD2 gene. J Biol Chem (1997) 1.47
RNAither, an automated pipeline for the statistical analysis of high-throughput RNAi screens. Bioinformatics (2009) 1.44
RNAiCut: automated detection of significant genes from functional genomic screens. Nat Methods (2009) 1.28
Ionomics: studying the social network of mineral nutrients. Curr Opin Plant Biol (2009) 1.27
How to understand the cell by breaking it: network analysis of gene perturbation screens. PLoS Comput Biol (2010) 1.24
An analysis of normalization methods for Drosophila RNAi genomic screens and development of a robust validation scheme. J Biomol Screen (2008) 1.07
Hit selection with false discovery rate control in genome-scale RNAi screens. Nucleic Acids Res (2008) 1.07
Determination of sample size in genome-scale RNAi screens. Bioinformatics (2009) 1.00
The Pmr1 protein, the major yeast Ca2+-ATPase in the Golgi, regulates intracellular levels of the cadmium ion. FEMS Microbiol Lett (2008) 0.91
Yeast genomics and drug target identification. Comb Chem High Throughput Screen (2007) 0.90
Knowledge based identification of essential signaling from genome-scale siRNA experiments. BMC Syst Biol (2009) 0.85
Novel role for the Saccharomyces cerevisiae oligopeptide transporter Opt2 in drug detoxification. Biochem Cell Biol (2009) 0.82
Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines. Nature (2010) 10.66
Recognition of a virus-encoded ligand by a natural killer cell activation receptor. Proc Natl Acad Sci U S A (2002) 5.17
Analysis and validation of proteomic data generated by tandem mass spectrometry. Nat Methods (2007) 5.10
Genomic scale profiling of nutrient and trace elements in Arabidopsis thaliana. Nat Biotechnol (2003) 4.20
The dynamic life of natural killer cells. Annu Rev Immunol (2004) 3.96
SuperHirn - a novel tool for high resolution LC-MS-based peptide/protein profiling. Proteomics (2007) 3.60
Natural variants of AtHKT1 enhance Na+ accumulation in two wild populations of Arabidopsis. PLoS Genet (2006) 2.91
A coastal cline in sodium accumulation in Arabidopsis thaliana is driven by natural variation of the sodium transporter AtHKT1;1. PLoS Genet (2010) 2.45
Gain of virulence caused by loss of a gene in murine cytomegalovirus. J Virol (2004) 2.43
Targeted peptide measurements in biology and medicine: best practices for mass spectrometry-based assay development using a fit-for-purpose approach. Mol Cell Proteomics (2014) 2.37
Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast. Sci Signal (2010) 2.36
Genome-wide patterns of single-feature polymorphism in Arabidopsis thaliana. Proc Natl Acad Sci U S A (2007) 2.29
Ionomics and the study of the plant ionome. Annu Rev Plant Biol (2008) 2.21
TNFalpha blockade in human diseases: mechanisms and future directions. Clin Immunol (2007) 2.17
Escape of mutant double-stranded DNA virus from innate immune control. Immunity (2004) 2.14
Salicylic acid-mediated innate immunity in Arabidopsis is regulated by SIZ1 SUMO E3 ligase. Plant J (2006) 2.13
Hierarchy of the human natural killer cell response is determined by class and quantity of inhibitory receptors for self-HLA-B and HLA-C ligands. J Immunol (2007) 2.12
The leaf ionome as a multivariable system to detect a plant's physiological status. Proc Natl Acad Sci U S A (2008) 2.08
Statistical design of quantitative mass spectrometry-based proteomic experiments. J Proteome Res (2009) 2.02
Variation in molybdenum content across broadly distributed populations of Arabidopsis thaliana is controlled by a mitochondrial molybdenum transporter (MOT1). PLoS Genet (2008) 1.99
The bHLH transcription factor POPEYE regulates response to iron deficiency in Arabidopsis roots. Plant Cell (2010) 1.98
Root suberin forms an extracellular barrier that affects water relations and mineral nutrition in Arabidopsis. PLoS Genet (2009) 1.95
The effect of iron on the primary root elongation of Arabidopsis during phosphate deficiency. Plant Physiol (2008) 1.93
Arabidopsis pdr2 reveals a phosphate-sensitive checkpoint in root development. Plant J (2004) 1.87
Mutations in Arabidopsis yellow stripe-like1 and yellow stripe-like3 reveal their roles in metal ion homeostasis and loading of metal ions in seeds. Plant Physiol (2006) 1.86
TNFalpha blockade in human diseases: an overview of efficacy and safety. Clin Immunol (2007) 1.85
Licensing of natural killer cells by self-major histocompatibility complex class I. Immunol Rev (2006) 1.82
Purdue ionomics information management system. An integrated functional genomics platform. Plant Physiol (2006) 1.77
How do natural killer cells find self to achieve tolerance? Immunity (2006) 1.74
Diabetic retinopathy is associated with bone marrow neuropathy and a depressed peripheral clock. J Exp Med (2009) 1.68
Functional association of Arabidopsis CAX1 and CAX3 is required for normal growth and ion homeostasis. Plant Physiol (2005) 1.62
Multivariate statistical differentiation of renal cell carcinomas based on lipidomic analysis by ambient ionization imaging mass spectrometry. Anal Bioanal Chem (2010) 1.58
SIZ1 small ubiquitin-like modifier E3 ligase facilitates basal thermotolerance in Arabidopsis independent of salicylic acid. Plant Physiol (2006) 1.58
Effect of intensive versus moderate lipid-lowering therapy on epicardial adipose tissue in hyperlipidemic post-menopausal women: a substudy of the BELLES trial (Beyond Endorsed Lipid Lowering with EBT Scanning). J Am Coll Cardiol (2013) 1.54
The ferroportin metal efflux proteins function in iron and cobalt homeostasis in Arabidopsis. Plant Cell (2009) 1.53
Phospholipase C-gamma 2 is a critical signaling mediator for murine NK cell activating receptors. J Immunol (2005) 1.53
Establishing RNA interference as a reverse-genetic approach for gene functional analysis in protoplasts. Plant Physiol (2008) 1.50
Increased glutathione biosynthesis plays a role in nickel tolerance in thlaspi nickel hyperaccumulators. Plant Cell (2004) 1.48
Screening for pressure ulcer risk in an acute care hospital: development of a brief bedside scale. J Clin Epidemiol (2002) 1.48
Corra: Computational framework and tools for LC-MS discovery and targeted mass spectrometry-based proteomics. BMC Bioinformatics (2008) 1.48
Plants, selenium and human health. Curr Opin Plant Biol (2003) 1.47
Protein significance analysis in selected reaction monitoring (SRM) measurements. Mol Cell Proteomics (2011) 1.45
Protein quantification in label-free LC-MS experiments. J Proteome Res (2009) 1.41
Cutting edge: antibody-dependent memory-like NK cells distinguished by FcRγ deficiency. J Immunol (2013) 1.35
Genetic and physiological basis of adaptive salt tolerance divergence between coastal and inland Mimulus guttatus. New Phytol (2009) 1.32
Dirigent domain-containing protein is part of the machinery required for formation of the lignin-based Casparian strip in the root. Proc Natl Acad Sci U S A (2013) 1.31
Successful reproduction requires the function of Arabidopsis Yellow Stripe-Like1 and Yellow Stripe-Like3 metal-nicotianamine transporters in both vegetative and reproductive structures. Plant Physiol (2010) 1.31
Multivariate statistical identification of human bladder carcinomas using ambient ionization imaging mass spectrometry. Chemistry (2011) 1.28
Weeds, worms, and more. Papain's long-lost cousin, phytochelatin synthase. Plant Physiol (2004) 1.27
A vacuolar arsenite transporter necessary for arsenic tolerance in the arsenic hyperaccumulating fern Pteris vittata is missing in flowering plants. Plant Cell (2010) 1.27
Polyploids exhibit higher potassium uptake and salinity tolerance in Arabidopsis. Science (2013) 1.27
DAP12 signaling directly augments proproliferative cytokine stimulation of NK cells during viral infections. J Immunol (2006) 1.26
Effects of MHC class I alleles on licensing of Ly49A+ NK cells. J Immunol (2010) 1.24
Shrinkage estimation of dispersion in Negative Binomial models for RNA-seq experiments with small sample size. Bioinformatics (2013) 1.23
Modified FOLFIRINOX regimen with improved safety and maintained efficacy in pancreatic adenocarcinoma. Pancreas (2013) 1.21
A novel arsenate reductase from the arsenic hyperaccumulating fern Pteris vittata. Plant Physiol (2006) 1.19
Coordinate expression of cytokines and chemokines by NK cells during murine cytomegalovirus infection. J Immunol (2004) 1.19
Computational mass spectrometry-based proteomics. PLoS Comput Biol (2011) 1.18
Influence of V-pits on the efficiency droop in InGaN/GaN quantum wells. Opt Express (2014) 1.17
Genome-wide association studies identify heavy metal ATPase3 as the primary determinant of natural variation in leaf cadmium in Arabidopsis thaliana. PLoS Genet (2012) 1.16
An Arabidopsis basic helix-loop-helix leucine zipper protein modulates metal homeostasis and auxin conjugate responsiveness. Genetics (2006) 1.14
Tonoplast-localized Abc2 transporter mediates phytochelatin accumulation in vacuoles and confers cadmium tolerance. J Biol Chem (2010) 1.12
Iron-induced turnover of the Arabidopsis IRON-REGULATED TRANSPORTER1 metal transporter requires lysine residues. Plant Physiol (2008) 1.12
Sphingolipids in the root play an important role in regulating the leaf ionome in Arabidopsis thaliana. Plant Cell (2011) 1.12
Variation in grain arsenic assessed in a diverse panel of rice (Oryza sativa) grown in multiple sites. New Phytol (2011) 1.10
Light to moderate alcohol consumption and disability: variable benefits by health status. Am J Epidemiol (2008) 1.10
Biodiversity of mineral nutrient and trace element accumulation in Arabidopsis thaliana. PLoS One (2012) 1.09
Expression profiling of rice segregating for drought tolerance QTLs using a rice genome array. Funct Integr Genomics (2004) 1.09
Localizing the biochemical transformations of arsenate in a hyperaccumulating fern. Environ Sci Technol (2006) 1.09
Analysis of sulfur and selenium assimilation in Astragalus plants with varying capacities to accumulate selenium. Plant J (2005) 1.09
Correlation between y-type ions observed in ion trap and triple quadrupole mass spectrometers. J Proteome Res (2009) 1.08
Constitutively elevated salicylic acid signals glutathione-mediated nickel tolerance in Thlaspi nickel hyperaccumulators. Plant Physiol (2005) 1.08
Chemical form and distribution of selenium and sulfur in the selenium hyperaccumulator Astragalus bisulcatus. Plant Physiol (2003) 1.08
Identification of human NK cells that are deficient for signaling adaptor FcRγ and specialized for antibody-dependent immune functions. Int Immunol (2012) 1.08
IL-18 acts synergistically with IL-15 in stimulating natural killer cell proliferation. Cytokine (2006) 1.07
Identification and quantification of metabolites in (1)H NMR spectra by Bayesian model selection. Bioinformatics (2011) 1.07
Gene expression profiling of Caco-2 BBe cells suggests a role for specific signaling pathways during intestinal differentiation. Physiol Genomics (2003) 1.07
MTP1-dependent Zn sequestration into shoot vacuoles suggests dual roles in Zn tolerance and accumulation in Zn-hyperaccumulating plants. Plant J (2008) 1.06
Targeting of the mouse Slc39a2 (Zip2) gene reveals highly cell-specific patterns of expression, and unique functions in zinc, iron, and calcium homeostasis. Genesis (2007) 1.06
Natural genetic variation in selected populations of Arabidopsis thaliana is associated with ionomic differences. PLoS One (2010) 1.05
Bulk segregant analysis using single nucleotide polymorphism microarrays. PLoS One (2011) 1.05
Statistical protein quantification and significance analysis in label-free LC-MS experiments with complex designs. BMC Bioinformatics (2012) 1.03
Production of Se-methylselenocysteine in transgenic plants expressing selenocysteine methyltransferase. BMC Plant Biol (2004) 1.01
Arabidopsis NPCC6/NaKR1 is a phloem mobile metal binding protein necessary for phloem function and root meristem maintenance. Plant Cell (2010) 1.00
Type-B response regulators ARR1 and ARR12 regulate expression of AtHKT1;1 and accumulation of sodium in Arabidopsis shoots. Plant J (2010) 0.99
Assessment of plants from the Brassicaceae family as genetic models for the study of nickel and zinc hyperaccumulation. New Phytol (2006) 0.98
Drosophila ABC transporter, DmHMT-1, confers tolerance to cadmium. DmHMT-1 and its yeast homolog, SpHMT-1, are not essential for vacuolar phytochelatin sequestration. J Biol Chem (2008) 0.98
Phosphodiesterases coordinate cAMP propagation induced by two stimulatory G protein-coupled receptors in hearts. Proc Natl Acad Sci U S A (2012) 0.98
Interdependence of signal processing and analysis of urine 1H NMR spectra for metabolic profiling. Anal Chem (2009) 0.97