Published in PLoS Biol on November 02, 2010
Yeast: an experimental organism for 21st Century biology. Genetics (2011) 1.88
Identification of transcriptional and metabolic programs related to mammalian cell size. Curr Biol (2014) 1.71
JAGGED controls growth anisotropyand coordination between cell sizeand cell cycle during plant organogenesis. Curr Biol (2012) 1.62
Dosage compensation can buffer copy-number variation in wild yeast. Elife (2015) 1.58
Single mammalian cells compensate for differences in cellular volume and DNA copy number through independent global transcriptional mechanisms. Mol Cell (2015) 1.48
Polyploidy in fungi: evolution after whole-genome duplication. Proc Biol Sci (2012) 1.04
Organ size regulation in plants: insights from compensation. Front Plant Sci (2011) 1.02
Control of cell proliferation, endoreduplication, cell size, and cell death by the retinoblastoma-related pathway in maize endosperm. Proc Natl Acad Sci U S A (2013) 0.98
Does ploidy level directly control cell size? Counterevidence from Arabidopsis genetics. PLoS One (2013) 0.97
Cryptic fitness advantage: diploids invade haploid populations despite lacking any apparent advantage as measured by standard fitness assays. PLoS One (2011) 0.97
Dilution of the cell cycle inhibitor Whi5 controls budding-yeast cell size. Nature (2015) 0.95
The expanding implications of polyploidy. J Cell Biol (2015) 0.95
Adaptation to High Ethanol Reveals Complex Evolutionary Pathways. PLoS Genet (2015) 0.89
Rapid mechanisms for generating genome diversity: whole ploidy shifts, aneuploidy, and loss of heterozygosity. Cold Spring Harb Perspect Med (2014) 0.87
Cell-Size Control. Cold Spring Harb Perspect Biol (2016) 0.86
Cell cycle control and seed development. Front Plant Sci (2014) 0.83
Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles. PLoS Genet (2016) 0.83
Variation in transcriptome size: are we getting the message? Chromosoma (2014) 0.82
Cell biology: Import and nuclear size. Nature (2010) 0.81
Further support for aneuploidy tolerance in wild yeast and effects of dosage compensation on gene copy-number evolution. Elife (2016) 0.80
Ploidy dictates repair pathway choice under DNA replication stress. Genetics (2011) 0.79
The cellular growth rate controls overall mRNA turnover, and modulates either transcription or degradation rates of particular gene regulons. Nucleic Acids Res (2015) 0.78
Stimulation of Cell Elongation by Tetraploidy in Hypocotyls of Dark-Grown Arabidopsis Seedlings. PLoS One (2015) 0.78
Genome management and mismanagement-cell-level opportunities and challenges of whole-genome duplication. Genes Dev (2015) 0.78
Gene expression dosage regulation in an allopolyploid fish. PLoS One (2015) 0.78
The INO80 Complex Requires the Arp5-Ies6 Subcomplex for Chromatin Remodeling and Metabolic Regulation. Mol Cell Biol (2016) 0.77
Transcriptomic Effects of the Cell Cycle Regulator LGO in Arabidopsis Sepals. Front Plant Sci (2016) 0.77
Control analysis of the eukaryotic cell cycle using gene copy-number series in yeast tetraploids. BMC Genomics (2013) 0.76
A new class of cyclin dependent kinase in Chlamydomonas is required for coupling cell size to cell division. Elife (2016) 0.76
Endopolyploidy changes with age-related polyethism in the honey bee, Apis mellifera. PLoS One (2015) 0.75
One size does not fit all for transcriptomes. Nat Rev Genet (2010) 0.75
The Histone Acetyltransferase Gcn5 Regulates ncRNA-ICR1 and FLO11 Expression during Pseudohyphal Development in Saccharomyces cerevisiae. Biomed Res Int (2015) 0.75
Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods (2008) 126.81
Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. Mol Biol Cell (1998) 62.20
RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet (2009) 58.77
Transcriptional regulatory code of a eukaryotic genome. Nature (2004) 27.21
An improved map of conserved regulatory sites for Saccharomyces cerevisiae. BMC Bioinformatics (2006) 11.13
Coordination of growth with cell division in the yeast Saccharomyces cerevisiae. Exp Cell Res (1977) 10.42
A chemical switch for inhibitor-sensitive alleles of any protein kinase. Nature (2000) 10.16
Ploidy regulation of gene expression. Science (1999) 9.98
Genetic control of cell size at cell division in yeast. Nature (1975) 7.74
Effects of aneuploidy on cellular physiology and cell division in haploid yeast. Science (2007) 7.69
Systematic identification of pathways that couple cell growth and division in yeast. Science (2002) 6.95
Elements of a single MAP kinase cascade in Saccharomyces cerevisiae mediate two developmental programs in the same cell type: mating and invasive growth. Genes Dev (1994) 6.92
Tetraploidy, aneuploidy and cancer. Curr Opin Genet Dev (2007) 4.96
MAP kinases with distinct inhibitory functions impart signaling specificity during yeast differentiation. Cell (1997) 4.69
Saccharomyces cerevisiae S288C has a mutation in FLO8, a gene required for filamentous growth. Genetics (1996) 4.39
The effects of molecular noise and size control on variability in the budding yeast cell cycle. Nature (2007) 4.15
Program-specific distribution of a transcription factor dependent on partner transcription factor and MAPK signaling. Cell (2003) 4.12
Cell growth and size homeostasis in proliferating animal cells. Science (2009) 3.89
A spatial gradient coordinates cell size and mitotic entry in fission yeast. Nature (2009) 3.23
Function and regulation in MAPK signaling pathways: lessons learned from the yeast Saccharomyces cerevisiae. Biochim Biophys Acta (2007) 3.07
Genotype to phenotype: a complex problem. Science (2010) 2.92
Inhibitory and activating functions for MAPK Kss1 in the S. cerevisiae filamentous-growth signalling pathway. Nature (1997) 2.85
Genome-wide genetic analysis of polyploidy in yeast. Nature (2006) 2.85
Endoreplication: polyploidy with purpose. Genes Dev (2009) 2.78
Consequences of genome duplication. Curr Opin Genet Dev (2007) 2.72
Muc1, a mucin-like protein that is regulated by Mss10, is critical for pseudohyphal differentiation in yeast. Proc Natl Acad Sci U S A (1996) 2.68
The size of the nucleus increases as yeast cells grow. Mol Biol Cell (2007) 2.55
Two novel targets of the MAP kinase Kss1 are negative regulators of invasive growth in the yeast Saccharomyces cerevisiae. Genes Dev (1996) 2.49
Target hub proteins serve as master regulators of development in yeast. Genes Dev (2006) 2.39
Nuclear size control in fission yeast. J Cell Biol (2007) 2.32
Regulation of the mating pheromone and invasive growth responses in yeast by two MAP kinase substrates. Curr Biol (1997) 2.32
Evidence for a size-sensing mechanism in animal cells. Nat Cell Biol (2004) 2.09
FLO11, a yeast gene related to the STA genes, encodes a novel cell surface flocculin. J Bacteriol (1996) 2.08
Genomic analysis of homotypic vacuole fusion. Mol Biol Cell (2002) 2.06
Mating in Candida albicans and the search for a sexual cycle. Annu Rev Microbiol (2005) 2.06
Genes that can bypass the CLN requirement for Saccharomyces cerevisiae cell cycle START. Mol Cell Biol (1994) 1.95
The rate of cell growth is governed by cell cycle stage. Genes Dev (2009) 1.82
The 2R hypothesis: an update. Curr Opin Immunol (2007) 1.76
Eap1p, a novel eukaryotic translation initiation factor 4E-associated protein in Saccharomyces cerevisiae. Mol Cell Biol (2000) 1.39
Defects arising from whole-genome duplications in Saccharomyces cerevisiae. Genetics (2004) 1.32
Dual role of the Saccharomyces cerevisiae TEA/ATTS family transcription factor Tec1p in regulation of gene expression and cellular development. Eukaryot Cell (2002) 1.17
Size control goes global. Curr Opin Biotechnol (2007) 1.16
The G1 cyclin Cln3p controls vacuolar biogenesis in Saccharomyces cerevisiae. Genetics (2003) 1.05
Yeast Eap1p, an eIF4E-associated protein, has a separate function involving genetic stability. Curr Biol (2000) 0.90
Transcriptional regulatory networks in Saccharomyces cerevisiae. Science (2002) 43.52
Core transcriptional regulatory circuitry in human embryonic stem cells. Cell (2005) 34.93
Control of developmental regulators by Polycomb in human embryonic stem cells. Cell (2006) 28.21
Transcriptional regulatory code of a eukaryotic genome. Nature (2004) 27.21
Polycomb complexes repress developmental regulators in murine embryonic stem cells. Nature (2006) 25.90
Genome-wide map of nucleosome acetylation and methylation in yeast. Cell (2005) 15.08
Control of pancreas and liver gene expression by HNF transcription factors. Science (2004) 12.05
An improved map of conserved regulatory sites for Saccharomyces cerevisiae. BMC Bioinformatics (2006) 11.13
Calorie restriction extends Saccharomyces cerevisiae lifespan by increasing respiration. Nature (2002) 8.45
Tissue-specific transcriptional regulation has diverged significantly between human and mouse. Nat Genet (2007) 6.92
Computational discovery of gene modules and regulatory networks. Nat Biotechnol (2003) 6.55
PIN proteins perform a rate-limiting function in cellular auxin efflux. Science (2006) 5.58
Unconventional Rac-GEF activity is mediated through the Dock180-ELMO complex. Nat Cell Biol (2002) 4.29
Transcriptional response of Candida albicans upon internalization by macrophages. Eukaryot Cell (2004) 4.28
Program-specific distribution of a transcription factor dependent on partner transcription factor and MAPK signaling. Cell (2003) 4.12
Intragenic tandem repeats generate functional variability. Nat Genet (2005) 4.02
FLO1 is a variable green beard gene that drives biofilm-like cooperation in budding yeast. Cell (2008) 3.76
High-resolution computational models of genome binding events. Nat Biotechnol (2006) 3.74
Global position and recruitment of HATs and HDACs in the yeast genome. Mol Cell (2004) 3.74
Genetic and epigenetic regulation of the FLO gene family generates cell-surface variation in yeast. Cell (2004) 3.63
Antisense transcription controls cell fate in Saccharomyces cerevisiae. Cell (2006) 3.49
Continuous representations of time-series gene expression data. J Comput Biol (2003) 3.32
Engineering yeast transcription machinery for improved ethanol tolerance and production. Science (2006) 3.30
Core transcriptional regulatory circuitry in human hepatocytes. Mol Syst Biol (2006) 3.15
Combining location and expression data for principled discovery of genetic regulatory network models. Pac Symp Biocomput (2002) 3.05
Genotype to phenotype: a complex problem. Science (2010) 2.92
Feedback control of morphogenesis in fungi by aromatic alcohols. Genes Dev (2006) 2.88
A drug-sensitive genetic network masks fungi from the immune system. PLoS Pathog (2006) 2.65
A hypothesis-based approach for identifying the binding specificity of regulatory proteins from chromatin immunoprecipitation data. Bioinformatics (2005) 2.52
Tyrosol is a quorum-sensing molecule in Candida albicans. Proc Natl Acad Sci U S A (2004) 2.39
Toggle involving cis-interfering noncoding RNAs controls variegated gene expression in yeast. Proc Natl Acad Sci U S A (2009) 2.36
High-resolution mapping reveals a conserved, widespread, dynamic mRNA methylation program in yeast meiosis. Cell (2013) 2.35
Phagocytosis by neutrophils induces an amino acid deprivation response in Saccharomyces cerevisiae and Candida albicans. Proc Natl Acad Sci U S A (2003) 2.19
Dynamic, morphotype-specific Candida albicans beta-glucan exposure during infection and drug treatment. PLoS Pathog (2008) 2.14
Comparing the continuous representation of time-series expression profiles to identify differentially expressed genes. Proc Natl Acad Sci U S A (2003) 2.10
Genetic architecture of Hsp90-dependent drug resistance. Eukaryot Cell (2006) 2.09
High osmolarity extends life span in Saccharomyces cerevisiae by a mechanism related to calorie restriction. Mol Cell Biol (2002) 2.08
Origins of variation in the fungal cell surface. Nat Rev Microbiol (2004) 2.01
Life and death in a macrophage: role of the glyoxylate cycle in virulence. Eukaryot Cell (2002) 1.98
Coordinated binding of NF-kappaB family members in the response of human cells to lipopolysaccharide. Proc Natl Acad Sci U S A (2006) 1.96
Yeast: an experimental organism for 21st Century biology. Genetics (2011) 1.88
Compatibility with killer explains the rise of RNAi-deficient fungi. Science (2011) 1.79
High resolution genome wide binding event finding and motif discovery reveals transcription factor spatial binding constraints. PLoS Comput Biol (2012) 1.76
Identification of the proteins required for biosynthesis of diphthamide, the target of bacterial ADP-ribosylating toxins on translation elongation factor 2. Mol Cell Biol (2004) 1.76
Global gene deletion analysis exploring yeast filamentous growth. Science (2012) 1.67
K-ary clustering with optimal leaf ordering for gene expression data. Bioinformatics (2003) 1.53
RNA methylation by the MIS complex regulates a cell fate decision in yeast. PLoS Genet (2012) 1.53
Single-cell analysis reveals that noncoding RNAs contribute to clonal heterogeneity by modulating transcription factor recruitment. Mol Cell (2012) 1.53
Deconvolving cell cycle expression data with complementary information. Bioinformatics (2004) 1.51
Differentiated human stem cells resemble fetal, not adult, β cells. Proc Natl Acad Sci U S A (2014) 1.44
The plant hormone indoleacetic acid induces invasive growth in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A (2004) 1.42
Global control of motor neuron topography mediated by the repressive actions of a single hox gene. Neuron (2010) 1.41
Synergistic binding of transcription factors to cell-specific enhancers programs motor neuron identity. Nat Neurosci (2013) 1.36
Discovering homotypic binding events at high spatial resolution. Bioinformatics (2010) 1.33
Compartmentalization of metabolic pathways in yeast mitochondria improves the production of branched-chain alcohols. Nat Biotechnol (2013) 1.33
Defects arising from whole-genome duplications in Saccharomyces cerevisiae. Genetics (2004) 1.32
Analysis of the mouse embryonic stem cell regulatory networks obtained by ChIP-chip and ChIP-PET. Genome Biol (2008) 1.29
Arabidopsis ALF4 encodes a nuclear-localized protein required for lateral root formation. Plant J (2004) 1.28
Fungal recognition is mediated by the association of dectin-1 and galectin-3 in macrophages. Proc Natl Acad Sci U S A (2011) 1.28
Coding tandem repeats generate diversity in Aspergillus fumigatus genes. Eukaryot Cell (2007) 1.23
A Saccharomyces cerevisiae mutant with increased virulence. Proc Natl Acad Sci U S A (2003) 1.23
The Saccharomyces cerevisiae calponin/transgelin homolog Scp1 functions with fimbrin to regulate stability and organization of the actin cytoskeleton. Mol Biol Cell (2003) 1.21
Embryonic stem cell-based mapping of developmental transcriptional programs. Nat Methods (2011) 1.20
Ligand-dependent dynamics of retinoic acid receptor binding during early neurogenesis. Genome Biol (2011) 1.19
Bruton's Tyrosine Kinase (BTK) and Vav1 contribute to Dectin1-dependent phagocytosis of Candida albicans in macrophages. PLoS Pathog (2013) 1.19
Automated discovery of functional generality of human gene expression programs. PLoS Comput Biol (2007) 1.18
Genetic manipulation of vacuolar proton pumps and transporters. Plant Physiol (2002) 1.16
Phagocytosis by human neutrophils is stimulated by a unique fungal cell wall component. Cell Host Microbe (2007) 1.15
The BON/CPN gene family represses cell death and promotes cell growth in Arabidopsis. Plant J (2006) 1.14
Saccharomyces cerevisiae SSD1-V confers longevity by a Sir2p-independent mechanism. Genetics (2004) 1.14
Genetic and epigenetic mechanisms underlying cell-surface variability in protozoa and fungi. Annu Rev Genet (2009) 1.12
Genes with internal repeats require the THO complex for transcription. Proc Natl Acad Sci U S A (2006) 1.11
Mat formation in Saccharomyces cerevisiae requires nutrient and pH gradients. Eukaryot Cell (2007) 1.08
Rapid haplotype inference for nuclear families. Genome Biol (2010) 1.03
Injectable in situ cross-linking hydrogels for local antifungal therapy. Biomaterials (2009) 1.01
High-resolution genetic mapping with pooled sequencing. BMC Bioinformatics (2012) 1.01
Candida albicans Dicer (CaDcr1) is required for efficient ribosomal and spliceosomal RNA maturation. Proc Natl Acad Sci U S A (2011) 1.00
Lung epithelial cells and extracellular matrix components induce expression of Pneumocystis carinii STE20, a gene complementing the mating and pseudohyphal growth defects of STE20 mutant yeast. Infect Immun (2003) 0.98
Disentangling information flow in the Ras-cAMP signaling network. Genome Res (2006) 0.97
Antifungal hydrogels. Proc Natl Acad Sci U S A (2007) 0.94
Rapid resistome fingerprinting and clonal lineage profiling of carbapenem-resistant Klebsiella pneumoniae isolates by targeted next-generation sequencing. J Clin Microbiol (2014) 0.90
Feed-forward regulation of a cell fate determinant by an RNA-binding protein generates asymmetry in yeast. Genetics (2010) 0.89
Semi-supervised analysis of gene expression profiles for lineage-specific development in the Caenorhabditis elegans embryo. Bioinformatics (2006) 0.86
Genetic variation in Saccharomyces cerevisiae: circuit diversification in a signal transduction network. Genetics (2012) 0.86
Enhancing stress resistance and production phenotypes through transcriptome engineering. Methods Enzymol (2010) 0.82
Distal chromatin structure influences local nucleosome positions and gene expression. Nucleic Acids Res (2012) 0.82
A prototype antifungal contact lens. Invest Ophthalmol Vis Sci (2011) 0.81
FASTER MT: Isolation of Pure Populations of a and α Ascospores from Saccharomycescerevisiae. G3 (Bethesda) (2012) 0.79
Ruler arrays reveal haploid genomic structural variation. PLoS One (2012) 0.75
ReadDB provides efficient storage for mapped short reads. BMC Bioinformatics (2011) 0.75
Genes come and go: the evolutionarily plastic path of budding yeast RNase III enzymes. RNA Biol (2012) 0.75