Overview of the Alliance for Cellular Signaling.

Development of human protein reference database as an initial platform for approaching systems biology in humans. Genome Res (2003) 14.79

Ten years of pathway analysis: current approaches and outstanding challenges. PLoS Comput Biol (2012) 6.38

An evaluation of human protein-protein interaction data in the public domain. BMC Bioinformatics (2006) 3.33

Mathematical modeling reveals threshold mechanism in CD95-induced apoptosis. J Cell Biol (2004) 2.70

The mouse kinome: discovery and comparative genomics of all mouse protein kinases. Proc Natl Acad Sci U S A (2004) 2.50

A walk-through of the yeast mating pheromone response pathway. Peptides (2005) 2.47

A mouse macrophage lipidome. J Biol Chem (2010) 2.14

Toward predictive models of mammalian cells. Annu Rev Biophys Biomol Struct (2005) 1.82

Lgr5-expressing cells are sufficient and necessary for postnatal mammary gland organogenesis. Cell Rep (2013) 1.78

The JAK-STAT signaling network in the human B-cell: an extreme signaling pathway analysis. Biophys J (2004) 1.55

Operating regimes of signaling cycles: statics, dynamics, and noise filtering. PLoS Comput Biol (2007) 1.51

Mechanism of human dermal fibroblast migration driven by type I collagen and platelet-derived growth factor-BB. Mol Biol Cell (2003) 1.29

Imaging of cell migration. EMBO J (2006) 1.26

Robust spatial sensing of mating pheromone gradients by yeast cells. PLoS One (2008) 1.24

A versatile approach to multiple gene RNA interference using microRNA-based short hairpin RNAs. BMC Mol Biol (2007) 1.24

Identification of signaling components required for the prediction of cytokine release in RAW 264.7 macrophages. Genome Biol (2006) 1.14

A computational framework for the topological analysis and targeted disruption of signal transduction networks. Biophys J (2006) 1.12

Both ligand- and cell-specific parameters control ligand agonism in a kinetic model of g protein-coupled receptor signaling. PLoS Comput Biol (2007) 1.08

Introducing spatial information into predictive NF-kappaB modelling--an agent-based approach. PLoS One (2008) 1.04

The alliance for cellular signaling plasmid collection: a flexible resource for protein localization studies and signaling pathway analysis. Mol Cell Proteomics (2006) 0.97

Mechanism-derived gene expression signatures and predictive biomarkers in clinical oncology. Proc Natl Acad Sci U S A (2005) 0.97

Nuclear Receptor Signaling Atlas: Opening Access to the Biology of Nuclear Receptor Signaling Pathways. PLoS One (2015) 0.93

Cytopede: a three-dimensional tool for modeling cell motility on a flat surface. J Comput Biol (2010) 0.90

Parameter estimate of signal transduction pathways. BMC Neurosci (2006) 0.89

Dynamics of cellular level function and regulation derived from murine expression array data. Proc Natl Acad Sci U S A (2004) 0.89

The Molecule Pages database. Nucleic Acids Res (2007) 0.88

G-protein coupled receptor signaling architecture of mammalian immune cells. PLoS One (2009) 0.86

The Molecular Pages of the mesotelencephalic dopamine consortium (DopaNet). BMC Bioinformatics (2004) 0.85

Lipidomics: when apocrypha becomes canonical. Curr Opin Chem Biol (2012) 0.82

Complexity in cancer biology: is systems biology the answer? Cancer Med (2013) 0.81

Multiscale models of cell signaling. Ann Biomed Eng (2012) 0.80

SigFlux: a novel network feature to evaluate the importance of proteins in signal transduction networks. BMC Bioinformatics (2006) 0.79

PROTEOME-3D: an interactive bioinformatics tool for large-scale data exploration and knowledge discovery. Mol Cell Proteomics (2003) 0.78

Analyzing the biology on the system level. Genomics Proteomics Bioinformatics (2004) 0.77

Empirical multiscale networks of cellular regulation. PLoS Comput Biol (2007) 0.76

Information theoretic approach to complex biological network reconstruction: application to cytokine release in RAW 264.7 macrophages. BMC Syst Biol (2014) 0.75

Understanding the Warburg effect: the metabolic requirements of cell proliferation. Science (2009) 49.82

Improved monomeric red, orange and yellow fluorescent proteins derived from Discosoma sp. red fluorescent protein. Nat Biotechnol (2004) 36.25

Functional profiling of the Saccharomyces cerevisiae genome. Nature (2002) 36.10

The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration. Nat Biotechnol (2007) 35.41

Repeated observation of breast tumor subtypes in independent gene expression data sets. Proc Natl Acad Sci U S A (2003) 34.68

EGF receptor gene mutations are common in lung cancers from "never smokers" and are associated with sensitivity of tumors to gefitinib and erlotinib. Proc Natl Acad Sci U S A (2004) 33.85

MET amplification leads to gefitinib resistance in lung cancer by activating ERBB3 signaling. Science (2007) 32.68

AKT/PKB signaling: navigating downstream. Cell (2007) 31.26

FastTree 2--approximately maximum-likelihood trees for large alignments. PLoS One (2010) 26.15

Acquired resistance of lung adenocarcinomas to gefitinib or erlotinib is associated with a second mutation in the EGFR kinase domain. PLoS Med (2005) 25.93

A monomeric red fluorescent protein. Proc Natl Acad Sci U S A (2002) 21.56

GO::TermFinder--open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes. Bioinformatics (2004) 20.23

Cancer-associated IDH1 mutations produce 2-hydroxyglutarate. Nature (2009) 19.65

Isolation of rare circulating tumour cells in cancer patients by microchip technology. Nature (2007) 19.33

Partitioning of lipid-modified monomeric GFPs into membrane microdomains of live cells. Science (2002) 18.89

A guide to choosing fluorescent proteins. Nat Methods (2005) 18.55

Morphogenesis and oncogenesis of MCF-10A mammary epithelial acini grown in three-dimensional basement membrane cultures. Methods (2003) 18.51

The M2 splice isoform of pyruvate kinase is important for cancer metabolism and tumour growth. Nature (2008) 18.20

Evolution of genes and genomes on the Drosophila phylogeny. Nature (2007) 18.01

Identification of genes periodically expressed in the human cell cycle and their expression in tumors. Mol Biol Cell (2002) 17.32

The evolution of phosphatidylinositol 3-kinases as regulators of growth and metabolism. Nat Rev Genet (2006) 17.19

A new initiative on precision medicine. N Engl J Med (2015) 16.03

Scansite 2.0: Proteome-wide prediction of cell signaling interactions using short sequence motifs. Nucleic Acids Res (2003) 15.74

Textpresso: an ontology-based information retrieval and extraction system for biological literature. PLoS Biol (2004) 15.72

FastTree: computing large minimum evolution trees with profiles instead of a distance matrix. Mol Biol Evol (2009) 15.15

Rescuing US biomedical research from its systemic flaws. Proc Natl Acad Sci U S A (2014) 14.78

Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data. Nat Genet (2003) 14.56

STIM is a Ca2+ sensor essential for Ca2+-store-depletion-triggered Ca2+ influx. Curr Biol (2005) 14.53

Effective use of PI3K and MEK inhibitors to treat mutant Kras G12D and PIK3CA H1047R murine lung cancers. Nat Med (2008) 14.47

Transcriptional co-activator PGC-1 alpha drives the formation of slow-twitch muscle fibres. Nature (2002) 14.37

The fluorescent toolbox for assessing protein location and function. Science (2006) 14.02

The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein families. PLoS Biol (2007) 13.99

Detection of mutations in EGFR in circulating lung-cancer cells. N Engl J Med (2008) 13.54

Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression. Cell (2013) 13.43

Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project. Nat Biotechnol (2008) 12.96

Lymphocyte egress from thymus and peripheral lymphoid organs is dependent on S1P receptor 1. Nature (2004) 12.72

Microarray analysis reveals a major direct role of DNA copy number alteration in the transcriptional program of human breast tumors. Proc Natl Acad Sci U S A (2002) 12.68

The kinase LKB1 mediates glucose homeostasis in liver and therapeutic effects of metformin. Science (2005) 12.35

The tumor suppressor LKB1 kinase directly activates AMP-activated kinase and regulates apoptosis in response to energy stress. Proc Natl Acad Sci U S A (2004) 12.30

Ras, PI(3)K and mTOR signalling controls tumour cell growth. Nature (2006) 12.13

Control of stress-dependent cardiac growth and gene expression by a microRNA. Science (2007) 12.08

Identification of the tuberous sclerosis complex-2 tumor suppressor gene product tuberin as a target of the phosphoinositide 3-kinase/akt pathway. Mol Cell (2002) 11.65

Seven-transmembrane receptors. Nat Rev Mol Cell Biol (2002) 11.50

Substrate and functional diversity of lysine acetylation revealed by a proteomics survey. Mol Cell (2006) 11.38

Gene expression profiling identifies clinically relevant subtypes of prostate cancer. Proc Natl Acad Sci U S A (2004) 10.99

Circulating breast tumor cells exhibit dynamic changes in epithelial and mesenchymal composition. Science (2013) 10.87

Large-scale characterization of HeLa cell nuclear phosphoproteins. Proc Natl Acad Sci U S A (2004) 10.78

Inhibition of mTORC1 leads to MAPK pathway activation through a PI3K-dependent feedback loop in human cancer. J Clin Invest (2008) 10.74

Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO). Nucleic Acids Res (2002) 10.65

SOURCE: a unified genomic resource of functional annotations, ontologies, and gene expression data. Nucleic Acids Res (2003) 10.28

Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms. Nucleic Acids Res (2004) 10.18

A signature pattern of stress-responsive microRNAs that can evoke cardiac hypertrophy and heart failure. Proc Natl Acad Sci U S A (2006) 10.09

Dysregulation of microRNAs after myocardial infarction reveals a role of miR-29 in cardiac fibrosis. Proc Natl Acad Sci U S A (2008) 9.86

Pyruvate kinase M2 is a phosphotyrosine-binding protein. Nature (2008) 9.77

The many roles of histone deacetylases in development and physiology: implications for disease and therapy. Nat Rev Genet (2009) 9.68

Gene expression signature of fibroblast serum response predicts human cancer progression: similarities between tumors and wounds. PLoS Biol (2004) 9.38

Creating new fluorescent probes for cell biology. Nat Rev Mol Cell Biol (2002) 9.25

Gene Ontology annotations at SGD: new data sources and annotation methods. Nucleic Acids Res (2007) 9.03

Transient regenerative potential of the neonatal mouse heart. Science (2011) 9.02

Modelling glandular epithelial cancers in three-dimensional cultures. Nat Rev Cancer (2005) 8.70

Beta-arrestins and cell signaling. Annu Rev Physiol (2007) 8.65

Improving the photostability of bright monomeric orange and red fluorescent proteins. Nat Methods (2008) 8.41

Tuberous sclerosis complex gene products, Tuberin and Hamartin, control mTOR signaling by acting as a GTPase-activating protein complex toward Rheb. Curr Biol (2003) 8.25

NFAT signaling: choreographing the social lives of cells. Cell (2002) 8.17

Protein tyrosine phosphatases in the human genome. Cell (2004) 8.09

Transforming properties of YAP, a candidate oncogene on the chromosome 11q22 amplicon. Proc Natl Acad Sci U S A (2006) 8.01

Bidirectional transport of amino acids regulates mTOR and autophagy. Cell (2009) 7.88

The crystal structure of a voltage-gated sodium channel. Nature (2011) 7.82

The knockout mouse project. Nat Genet (2004) 7.80

Isolation of circulating tumor cells using a microvortex-generating herringbone-chip. Proc Natl Acad Sci U S A (2010) 7.77

The LKB1 tumor suppressor negatively regulates mTOR signaling. Cancer Cell (2004) 7.77

Introductory science and mathematics education for 21st-Century biologists. Science (2004) 7.69

Inappropriate activation of the TSC/Rheb/mTOR/S6K cassette induces IRS1/2 depletion, insulin resistance, and cell survival deficiencies. Curr Biol (2004) 7.59

Targeting the PI3K-Akt pathway in human cancer: rationale and promise. Cancer Cell (2003) 7.42

Oncogenic Kras maintains pancreatic tumors through regulation of anabolic glucose metabolism. Cell (2012) 7.36

The role of apoptosis in creating and maintaining luminal space within normal and oncogene-expressing mammary acini. Cell (2002) 7.35

The endothelial-specific microRNA miR-126 governs vascular integrity and angiogenesis. Dev Cell (2008) 7.26

CD69 acts downstream of interferon-alpha/beta to inhibit S1P1 and lymphocyte egress from lymphoid organs. Nature (2006) 7.17

Class II histone deacetylases act as signal-responsive repressors of cardiac hypertrophy. Cell (2002) 7.10

Molecular characterisation of soft tissue tumours: a gene expression study. Lancet (2002) 7.05

ZAP-70 compared with immunoglobulin heavy-chain gene mutation status as a predictor of disease progression in chronic lymphocytic leukemia. N Engl J Med (2004) 7.04

The molecular basis for phosphodependent substrate targeting and regulation of Plks by the Polo-box domain. Cell (2003) 7.04

Langerhans cells renew in the skin throughout life under steady-state conditions. Nat Immunol (2002) 7.03

Diversity, topographic differentiation, and positional memory in human fibroblasts. Proc Natl Acad Sci U S A (2002) 6.98

Proteomic screen finds pSer/pThr-binding domain localizing Plk1 to mitotic substrates. Science (2003) 6.97

Gene expression patterns in human liver cancers. Mol Biol Cell (2002) 6.93

MicroRNAs in stress signaling and human disease. Cell (2012) 6.93

Prediction of survival in diffuse large-B-cell lymphoma based on the expression of six genes. N Engl J Med (2004) 6.91

Phosphoglycerate dehydrogenase diverts glycolytic flux and contributes to oncogenesis. Nat Genet (2011) 6.89

Interlinked fast and slow positive feedback loops drive reliable cell decisions. Science (2005) 6.88

Control, exploitation and tolerance of intracellular noise. Nature (2002) 6.81

WormBase: better software, richer content. Nucleic Acids Res (2006) 6.78

Heart repair by reprogramming non-myocytes with cardiac transcription factors. Nature (2012) 6.65

InsPecT: identification of posttranslationally modified peptides from tandem mass spectra. Anal Chem (2005) 6.65

Robustness of cellular functions. Cell (2004) 6.65

Deacetylase inhibition promotes the generation and function of regulatory T cells. Nat Med (2007) 6.61