Published in Stat Appl Genet Mol Biol on March 18, 2003
A framework for oligonucleotide microarray preprocessing. Bioinformatics (2010) 3.97
Epithelial-mesenchymal transition-derived cells exhibit multilineage differentiation potential similar to mesenchymal stem cells. Stem Cells (2010) 2.54
Perturbation of indole-3-butyric acid homeostasis by the UDP-glucosyltransferase UGT74E2 modulates Arabidopsis architecture and water stress tolerance. Plant Cell (2010) 1.47
C/EBPa controls acquisition and maintenance of adult haematopoietic stem cell quiescence. Nat Cell Biol (2013) 1.36
MicroRNA-130b promotes tumor development and is associated with poor prognosis in colorectal cancer. Neoplasia (2013) 1.29
Defective CD8 T cell responses in aged mice are due to quantitative and qualitative changes in virus-specific precursors. J Immunol (2012) 1.25
Gene expression profiles of sporadic canine hemangiosarcoma are uniquely associated with breed. PLoS One (2009) 1.19
Sterol and diacylglycerol acyltransferase deficiency triggers fatty acid-mediated cell death. J Biol Chem (2009) 1.16
RNA-seq in grain unveils fate of neo- and paleopolyploidization events in bread wheat (Triticum aestivum L.). Genome Biol (2011) 1.07
Altered phenotype and gene transcription in endothelial cells, induced by Plasmodium falciparum-infected red blood cells: pathogenic or protective? Int J Parasitol (2007) 1.05
Soybean homologs of MPK4 negatively regulate defense responses and positively regulate growth and development. Plant Physiol (2011) 1.03
Tip60 HAT activity mediates APP induced lethality and apoptotic cell death in the CNS of a Drosophila Alzheimer's disease model. PLoS One (2012) 0.96
Nanoemulsion mucosal adjuvant uniquely activates cytokine production by nasal ciliated epithelium and induces dendritic cell trafficking. Eur J Immunol (2012) 0.94
Identification of new therapeutic targets by genome-wide analysis of gene expression in the ipsilateral cortex of aged rats after stroke. PLoS One (2012) 0.89
Genomic approach to study floral development genes in Rosa sp. PLoS One (2011) 0.87
Regulatory and metabolic networks for the adaptation of Pseudomonas aeruginosa biofilms to urinary tract-like conditions. PLoS One (2013) 0.87
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
Cbf genes of the Fr-A2 allele are differentially regulated between long-term cold acclimated crown tissue of freeze-resistant and - susceptible, winter wheat mutant lines. BMC Plant Biol (2009) 0.85
Improved statistical analysis of budding yeast TAG microarrays revealed by defined spike-in pools. Nucleic Acids Res (2005) 0.84
MicroRNA miR396 Regulates the Switch between Stem Cells and Transit-Amplifying Cells in Arabidopsis Roots. Plant Cell (2015) 0.83
Receptor interactive protein kinase 3 promotes Cisplatin-triggered necrosis in apoptosis-resistant esophageal squamous cell carcinoma cells. PLoS One (2014) 0.82
Developmental origins of neurotransmitter and transcriptome alterations in adult female zebrafish exposed to atrazine during embryogenesis. Toxicology (2015) 0.81
Cross-species toxicogenomic analyses and phenotypic anchoring in response to groundwater low-level pollution. BMC Genomics (2014) 0.80
IGF-1 modulates gene expression of proteins involved in inflammation, cytoskeleton, and liver architecture. J Physiol Biochem (2017) 0.78
Proteomic screening identifies calreticulin as a miR-27a direct target repressing MHC class I cell surface exposure in colorectal cancer. Cell Death Dis (2016) 0.78
YM155, a survivin suppressant, triggers PARP-dependent cell death (parthanatos) and inhibits esophageal squamous-cell carcinoma xenografts in mice. Oncotarget (2015) 0.78
Global gene expression changes of in vitro stimulated human transformed germinal centre B cells as surrogate for oncogenic pathway activation in individual aggressive B cell lymphomas. Cell Commun Signal (2012) 0.77
Early life perfluorooctanesulphonic acid (PFOS) exposure impairs zebrafish organogenesis. Aquat Toxicol (2014) 0.77
A chloroplast retrograde signal, 3'-phosphoadenosine 5'-phosphate, acts as a secondary messenger in abscisic acid signaling in stomatal closure and germination. Elife (2017) 0.75
The transcriptome of HIV-1 infected intestinal CD4+ T cells exposed to enteric bacteria. PLoS Pathog (2017) 0.75
Gene-nutrient interaction markedly influences yeast chronological lifespan. Exp Gerontol (2016) 0.75
The Transcription Factors EBF1 and EBF2 Are Positive Regulators of Myelination in Schwann Cells. Mol Neurobiol (2016) 0.75
Functional profiling of the Saccharomyces cerevisiae genome. Nature (2002) 36.10
Comparison of Affymetrix GeneChip expression measures. Bioinformatics (2006) 7.49
Analysis of the human protein interactome and comparison with yeast, worm and fly interaction datasets. Nat Genet (2006) 6.74
A DNA integrity network in the yeast Saccharomyces cerevisiae. Cell (2006) 6.61
Automated cell lineage tracing in Caenorhabditis elegans. Proc Natl Acad Sci U S A (2006) 6.22
A benchmark for Affymetrix GeneChip expression measures. Bioinformatics (2004) 5.99
Transcriptional disruption by the L1 retrotransposon and implications for mammalian transcriptomes. Nature (2004) 5.15
Human l1 retrotransposition is associated with genetic instability in vivo. Cell (2002) 4.79
Preprocessing of oligonucleotide array data. Nat Biotechnol (2004) 4.70
A robust toolkit for functional profiling of the yeast genome. Mol Cell (2004) 4.69
The biochemistry of sirtuins. Annu Rev Biochem (2006) 4.32
SIRT3, a human SIR2 homologue, is an NAD-dependent deacetylase localized to mitochondria. Proc Natl Acad Sci U S A (2002) 4.27
DNA helicase gene interaction network defined using synthetic lethality analyzed by microarray. Nat Genet (2003) 4.14
Removing technical variability in RNA-seq data using conditional quantile normalization. Biostatistics (2012) 3.74
Mobile interspersed repeats are major structural variants in the human genome. Cell (2010) 3.60
Human L1 element target-primed reverse transcription in vitro. EMBO J (2002) 3.54
The sirtuins hst3 and Hst4p preserve genome integrity by controlling histone h3 lysine 56 deacetylation. Curr Biol (2006) 3.37
Total synthesis of a functional designer eukaryotic chromosome. Science (2014) 3.31
Nucleocytosolic acetyl-coenzyme a synthetase is required for histone acetylation and global transcription. Mol Cell (2006) 3.22
Sequencing technology does not eliminate biological variability. Nat Biotechnol (2011) 3.20
Mighty Piwis defend the germline against genome intruders. Cell (2007) 3.06
Protein acetylation microarray reveals that NuA4 controls key metabolic target regulating gluconeogenesis. Cell (2009) 2.99
Synthetic chromosome arms function in yeast and generate phenotypic diversity by design. Nature (2011) 2.81
Functional genomics of genes with small open reading frames (sORFs) in S. cerevisiae. Genome Res (2006) 2.81
Regulated nucleosome mobility and the histone code. Nat Struct Mol Biol (2004) 2.76
A core nucleosome surface crucial for transcriptional silencing. Nat Genet (2002) 2.67
A highly active synthetic mammalian retrotransposon. Nature (2004) 2.51
A new shrinkage estimator for dispersion improves differential expression detection in RNA-seq data. Biostatistics (2012) 2.46
Feature-level exploration of a published Affymetrix GeneChip control dataset. Genome Biol (2006) 2.39
Toward a comprehensive temperature-sensitive mutant repository of the essential genes of Saccharomyces cerevisiae. Mol Cell (2008) 2.39
Insights into the role of histone H3 and histone H4 core modifiable residues in Saccharomyces cerevisiae. Mol Cell Biol (2005) 2.33
LINE-1 retrotransposons: modulators of quantity and quality of mammalian gene expression? Bioessays (2005) 2.24
Molecular archeology of L1 insertions in the human genome. Genome Biol (2002) 2.14
Glucose and weight control in mice with a designed ghrelin O-acyltransferase inhibitor. Science (2010) 2.12
Accurate genome-scale percentage DNA methylation estimates from microarray data. Biostatistics (2010) 2.11
Acetylation of yeast AMPK controls intrinsic aging independently of caloric restriction. Cell (2011) 2.10
Orientation-dependent regulation of integrated HIV-1 expression by host gene transcriptional readthrough. Cell Host Microbe (2008) 2.08
DNA hypomethylation arises later in prostate cancer progression than CpG island hypermethylation and contributes to metastatic tumor heterogeneity. Cancer Res (2008) 2.08
Gene function prediction from congruent synthetic lethal interactions in yeast. Mol Syst Biol (2005) 2.04
A comprehensive synthetic genetic interaction network governing yeast histone acetylation and deacetylation. Genes Dev (2008) 2.01
Structure of a Sir2 enzyme bound to an acetylated p53 peptide. Mol Cell (2002) 2.00
Probing nucleosome function: a highly versatile library of synthetic histone H3 and H4 mutants. Cell (2008) 1.99
Transposon-mediated genome manipulation in vertebrates. Nat Methods (2009) 1.96
Lysine succinylation and lysine malonylation in histones. Mol Cell Proteomics (2012) 1.95
Genome-wide identification of Isw2 chromatin-remodeling targets by localization of a catalytically inactive mutant. Genes Dev (2005) 1.92
GeneDesign: rapid, automated design of multikilobase synthetic genes. Genome Res (2006) 1.87
Global synthetic-lethality analysis and yeast functional profiling. Trends Genet (2005) 1.82
Human transposon tectonics. Cell (2012) 1.81
Genome-wide consequences of deleting any single gene. Mol Cell (2013) 1.76
Anti-HIV activity in cervical-vaginal secretions from HIV-positive and -negative women correlate with innate antimicrobial levels and IgG antibodies. PLoS One (2010) 1.73
Short-chain fatty acid activation by acyl-coenzyme A synthetases requires SIR2 protein function in Salmonella enterica and Saccharomyces cerevisiae. Genetics (2003) 1.73
Transcriptional interactions between yeast tRNA genes, flanking genes and Ty elements: a genomic point of view. Genome Res (2003) 1.71
Rapid identification of monospecific monoclonal antibodies using a human proteome microarray. Mol Cell Proteomics (2012) 1.65
The transcriptome and proteome of the diatom Thalassiosira pseudonana reveal a diverse phosphorus stress response. PLoS One (2012) 1.65
Polyubiquitin-sensor proteins reveal localization and linkage-type dependence of cellular ubiquitin signaling. Nat Methods (2012) 1.62
Finding friends and enemies in an enemies-only network: a graph diffusion kernel for predicting novel genetic interactions and co-complex membership from yeast genetic interactions. Genome Res (2008) 1.61
Telomeric and rDNA silencing in Saccharomyces cerevisiae are dependent on a nuclear NAD(+) salvage pathway. Genetics (2002) 1.60
Gene-breaking: a new paradigm for human retrotransposon-mediated gene evolution. Genome Res (2005) 1.58
Microarray-based genetic screen defines SAW1, a gene required for Rad1/Rad10-dependent processing of recombination intermediates. Mol Cell (2008) 1.56
A microarray-based genetic screen for yeast chronological aging factors. PLoS Genet (2010) 1.53
Efficient Tor signaling requires a functional class C Vps protein complex in Saccharomyces cerevisiae. Genetics (2007) 1.52
Active transposition in genomes. Annu Rev Genet (2012) 1.51
Active retrotransposition by a synthetic L1 element in mice. Proc Natl Acad Sci U S A (2006) 1.48
Teaching synthetic biology, bioinformatics and engineering to undergraduates: the interdisciplinary Build-a-Genome course. Genetics (2008) 1.41
Structural basis for the mechanism and regulation of Sir2 enzymes. Mol Cell (2004) 1.37
Affinity proteomics reveals human host factors implicated in discrete stages of LINE-1 retrotransposition. Cell (2013) 1.34
Reconstitution of papillomavirus E2-mediated plasmid maintenance in Saccharomyces cerevisiae by the Brd4 bromodomain protein. Proc Natl Acad Sci U S A (2005) 1.34
TFIIIB subunit Bdp1p is required for periodic integration of the Ty1 retrotransposon and targeting of Isw2p to S. cerevisiae tDNAs. Genes Dev (2005) 1.33
Retracted Functional dissection of lysine deacetylases reveals that HDAC1 and p300 regulate AMPK. Nature (2012) 1.29
dSLAM analysis of genome-wide genetic interactions in Saccharomyces cerevisiae. Methods (2007) 1.28
Improved microarray methods for profiling the Yeast Knockout strain collection. Nucleic Acids Res (2005) 1.21
Local definition of Ty1 target preference by long terminal repeats and clustered tRNA genes. Genome Res (2004) 1.21
Sequence quality analysis tool for HIV type 1 protease and reverse transcriptase. AIDS Res Hum Retroviruses (2011) 1.16
Histone H3 K56 hyperacetylation perturbs replisomes and causes DNA damage. Genetics (2008) 1.16
Inhibition of reverse transcription in vivo by elevated manganese ion concentration. Mol Cell (2002) 1.16
Retrotransposon Ty1 integration targets specifically positioned asymmetric nucleosomal DNA segments in tRNA hotspots. Genome Res (2012) 1.16
Transposon insertion site profiling chip (TIP-chip). Proc Natl Acad Sci U S A (2006) 1.14
Specificity of the BRISC deubiquitinating enzyme is not due to selective binding to Lys63-linked polyubiquitin. J Biol Chem (2009) 1.13
A Sleeping Beauty mutagenesis screen reveals a tumor suppressor role for Ncoa2/Src-2 in liver cancer. Proc Natl Acad Sci U S A (2012) 1.12
SIR2 family of NAD(+)-dependent protein deacetylases. Methods Enzymol (2002) 1.09
Alternative statistical parameter for high-throughput screening assay quality assessment. J Biomol Screen (2007) 1.09
The LRS and SIN domains: two structurally equivalent but functionally distinct nucleosomal surfaces required for transcriptional silencing. Mol Cell Biol (2006) 1.06
Ty1 mobilizes subtelomeric Y' elements in telomerase-negative Saccharomyces cerevisiae survivors. Mol Cell Biol (2004) 1.05
Effect of reverse transcriptase inhibitors on LINE-1 and Ty1 reverse transcriptase activities and on LINE-1 retrotransposition. BMC Biochem (2011) 1.05
GeneDesign 3.0 is an updated synthetic biology toolkit. Nucleic Acids Res (2010) 1.05
HistoneHits: a database for histone mutations and their phenotypes. Genome Res (2009) 1.04
Silent information regulator 3: the Goldilocks of the silencing complex. Genes Dev (2010) 1.03
Characterization of L1 retrotransposition with high-throughput dual-luciferase assays. Nucleic Acids Res (2010) 1.02
Compensatory interactions between Sir3p and the nucleosomal LRS surface imply their direct interaction. PLoS Genet (2008) 1.01
Multichange isothermal mutagenesis: a new strategy for multiple site-directed mutations in plasmid DNA. ACS Synth Biol (2013) 1.01
Chromosome-wide mapping of DNA methylation patterns in normal and malignant prostate cells reveals pervasive methylation of gene-associated and conserved intergenic sequences. BMC Genomics (2011) 1.00
Adipose tissue palmitoleic acid and obesity in humans: does it behave as a lipokine? Am J Clin Nutr (2010) 1.00
Poly(A) binding protein C1 is essential for efficient L1 retrotransposition and affects L1 RNP formation. Mol Cell Biol (2012) 0.99
Drug and cell type-specific regulation of genes with different classes of estrogen receptor beta-selective agonists. PLoS One (2009) 0.99
Assembling DNA fragments by USER fusion. Methods Mol Biol (2012) 0.99
Identification and characterization of critical cis-acting sequences within the yeast Ty1 retrotransposon. RNA (2005) 0.98
FKBP12 controls aspartate pathway flux in Saccharomyces cerevisiae to prevent toxic intermediate accumulation. Eukaryot Cell (2004) 0.98
The incredible shrinking world of DNA microarrays. Mol Biosyst (2008) 0.98