Visualizing and manipulating temporal signaling dynamics with fluorescence-based tools.

PubWeight™: 0.80‹?›

🔗 View Article (PMC 4319366)

Published in Sci Signal on April 01, 2014

Authors

David P Doupé1, Norbert Perrimon

Author Affiliations

1: 1Department of Genetics, Harvard Medical School, Boston, MA 02115, USA.

Articles citing this

High-Content Quantification of Single-Cell Immune Dynamics. Cell Rep (2016) 0.84

Molecular mechanisms underlying alcohol-drinking behaviours. Nat Rev Neurosci (2016) 0.83

Spatial and temporal organization of signaling pathways. Trends Biochem Sci (2014) 0.83

The temporal basis of angiogenesis. Philos Trans R Soc Lond B Biol Sci (2017) 0.78

Mapping signaling pathway cross-talk in Drosophila cells. Proc Natl Acad Sci U S A (2016) 0.75

Articles cited by this

A new generation of Ca2+ indicators with greatly improved fluorescence properties. J Biol Chem (1985) 90.20

Specificity of receptor tyrosine kinase signaling: transient versus sustained extracellular signal-regulated kinase activation. Cell (1995) 21.15

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

Engineering and characterization of a superfolder green fluorescent protein. Nat Biotechnol (2005) 9.17

TALENs: a widely applicable technology for targeted genome editing. Nat Rev Mol Cell Biol (2012) 7.01

Spatiotemporal control of cell signalling using a light-switchable protein interaction. Nature (2009) 6.74

Zebrafish prickle, a modulator of noncanonical Wnt/Fz signaling, regulates gastrulation movements. Curr Biol (2003) 6.60

FRET imaging. Nat Biotechnol (2003) 6.57

Optical control of mammalian endogenous transcription and epigenetic states. Nature (2013) 6.09

Growth factor-induced MAPK network topology shapes Erk response determining PC-12 cell fate. Nat Cell Biol (2007) 4.75

Genome engineering with zinc-finger nucleases. Genetics (2011) 4.66

Measuring calcium signaling using genetically targetable fluorescent indicators. Nat Protoc (2006) 3.96

Epidermal stem cells of the skin. Annu Rev Cell Dev Biol (2006) 3.92

Oscillations in notch signaling regulate maintenance of neural progenitors. Neuron (2008) 3.51

p53 dynamics control cell fate. Science (2012) 3.30

In vivo performance of genetically encoded indicators of neural activity in flies. J Neurosci (2005) 3.11

The intestinal crypt, a prototype stem cell compartment. Cell (2013) 3.00

A functional RNAi screen for regulators of receptor tyrosine kinase and ERK signalling. Nature (2006) 3.00

Encoding and decoding cellular information through signaling dynamics. Cell (2013) 2.96

GFP reporters detect the activation of the Drosophila JAK/STAT pathway in vivo. Gene Expr Patterns (2006) 2.96

Differential diffusivity of Nodal and Lefty underlies a reaction-diffusion patterning system. Science (2012) 2.57

The gene lin-3 encodes an inductive signal for vulval development in C. elegans. Nature (1992) 2.49

Functional heterogeneity of embryonic stem cells revealed through translational amplification of an early endodermal transcript. PLoS Biol (2010) 2.38

A genetically encoded fluorescent sensor of ERK activity. Proc Natl Acad Sci U S A (2008) 2.34

Growth factor signaling: where is the specificity? Cell (1992) 2.31

Using optogenetics to interrogate the dynamic control of signal transmission by the Ras/Erk module. Cell (2013) 2.22

The cyclic gene Hes1 contributes to diverse differentiation responses of embryonic stem cells. Genes Dev (2009) 2.19

EGF decreases the abundance of microRNAs that restrain oncogenic transcription factors. Sci Signal (2010) 2.16

Combinatorial signaling in the specification of unique cell fates. Cell (2000) 2.13

In vivo imaging of leukocyte trafficking in blood vessels and tissues. Curr Opin Immunol (2004) 2.10

Real-time imaging of the somite segmentation clock: revelation of unstable oscillators in the individual presomitic mesoderm cells. Proc Natl Acad Sci U S A (2006) 2.10

Tandem fluorescent protein timers for in vivo analysis of protein dynamics. Nat Biotechnol (2012) 2.06

Regulated nuclear import of the STAT1 transcription factor by direct binding of importin-alpha. EMBO J (2002) 2.01

A beta-catenin gradient links the clock and wavefront systems in mouse embryo segmentation. Nat Cell Biol (2007) 2.01

Signal-dependent dynamics of transcription factor translocation controls gene expression. Nat Struct Mol Biol (2011) 1.94

Inferring dynamic architecture of cellular networks using time series of gene expression, protein and metabolite data. Bioinformatics (2004) 1.91

Signaling mechanisms controlling cell fate and embryonic patterning. Cold Spring Harb Perspect Biol (2012) 1.89

The promise of optogenetics in cell biology: interrogating molecular circuits in space and time. Nat Methods (2010) 1.87

Lateral inhibition during vulval induction in Caenorhabditis elegans. Nature (1988) 1.78

Protein interaction network of the mammalian Hippo pathway reveals mechanisms of kinase-phosphatase interactions. Sci Signal (2013) 1.69

The stem cell niche: lessons from the Drosophila testis. Development (2011) 1.67

The CRISPR craze. Science (2013) 1.63

An EGFR/Ebi/Sno pathway promotes delta expression by inactivating Su(H)/SMRTER repression during inductive notch signaling. Cell (2002) 1.55

Visualization of small GTPase activity with fluorescence resonance energy transfer-based biosensors. Nat Protoc (2009) 1.53

The dynamics of signaling as a pharmacological target. Cell (2013) 1.45

Modular response analysis of cellular regulatory networks. J Theor Biol (2002) 1.43

Live Cell Imaging of ERK and MEK: simple binding equilibrium explains the regulated nucleocytoplasmic distribution of ERK. J Biol Chem (2004) 1.42

The Hippo signaling pathway interactome. Science (2013) 1.42

Visualization of an endogenous retinoic acid gradient across embryonic development. Nature (2013) 1.38

A versatile toolkit to produce sensitive FRET biosensors to visualize signaling in time and space. Sci Signal (2013) 1.37

Intestinal stem cells in the adult Drosophila midgut. Exp Cell Res (2011) 1.23

Genetically encoded fluorescent indicators to visualize protein phosphorylation by extracellular signal-regulated kinase in single living cells. Anal Chem (2007) 1.21

Proteomic and functional genomic landscape of receptor tyrosine kinase and ras to extracellular signal-regulated kinase signaling. Sci Signal (2011) 1.20

Recent advances in chemical approaches to the study of biological systems. Annu Rev Cell Dev Biol (2001) 1.17

Defining the protein-protein interaction network of the human hippo pathway. Mol Cell Proteomics (2013) 1.14

Ultradian oscillations in Notch signaling regulate dynamic biological events. Curr Top Dev Biol (2010) 1.07

The little R cell that could. Int J Dev Biol (2004) 1.05

Wnt signal from multiple tissues and lin-3/EGF signal from the gonad maintain vulval precursor cell competence in Caenorhabditis elegans. Proc Natl Acad Sci U S A (2007) 1.04

Transcriptional dynamics elicited by a short pulse of notch activation involves feed-forward regulation by E(spl)/Hes genes. PLoS Genet (2013) 1.03

Direct observation of frequency modulated transcription in single cells using light activation. Elife (2013) 1.03

Automatic generation of predictive dynamic models reveals nuclear phosphorylation as the key Msn2 control mechanism. Sci Signal (2013) 1.00

Live cell imaging reveals continuous STAT6 nuclear trafficking. J Immunol (2010) 1.00

Fluorescent proteins for FRET microscopy: monitoring protein interactions in living cells. Bioessays (2012) 0.99

Robustness and flexibility in nematode vulva development. Trends Genet (2012) 0.97

A perfect vulva every time: gradients and signaling cascades in C. elegans. Cell (1995) 0.96

Integration of protein abundance and structure data reveals competition in the ErbB signaling network. Sci Signal (2013) 0.94

The temporal pattern of stimulation determines the extent and duration of MAPK activation in a Caenorhabditis elegans sensory neuron. Sci Signal (2012) 0.92

Live transgenic reporters of the vertebrate embryo's Segmentation Clock. Curr Opin Genet Dev (2011) 0.88

Ikaros sets the potential for Th17 lineage gene expression through effects on chromatin state in early T cell development. J Biol Chem (2013) 0.88

Live cell imaging of mechanotransduction. J R Soc Interface (2010) 0.83

Articles by these authors

(truncated to the top 100)

Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science (2010) 12.39

The developmental transcriptome of Drosophila melanogaster. Nature (2010) 11.85

An endogenous small interfering RNA pathway in Drosophila. Nature (2008) 7.88

Genome-wide RNAi analysis of growth and viability in Drosophila cells. Science (2004) 7.75

The promise and perils of Wnt signaling through beta-catenin. Science (2002) 6.11

Minimizing the risk of reporting false positives in large-scale RNAi screens. Nat Methods (2006) 5.96

Evidence that stem cells reside in the adult Drosophila midgut epithelium. Nature (2005) 5.86

Exploiting position effects and the gypsy retrovirus insulator to engineer precisely expressed transgenes. Nat Genet (2008) 5.50

Functional genomic analysis of the Wnt-wingless signaling pathway. Science (2005) 4.73

A genome-scale shRNA resource for transgenic RNAi in Drosophila. Nat Methods (2011) 4.24

Sequential activation of signaling pathways during innate immune responses in Drosophila. Dev Cell (2002) 4.08

Heparan sulphate proteoglycans: the sweet side of development. Nat Rev Mol Cell Biol (2005) 3.92

Droplet microfluidic technology for single-cell high-throughput screening. Proc Natl Acad Sci U S A (2009) 3.85

Quantitative morphological signatures define local signaling networks regulating cell morphology. Science (2007) 3.76

Functional genomics reveals genes involved in protein secretion and Golgi organization. Nature (2006) 3.72

Drosophila RNAi screen reveals CD36 family member required for mycobacterial infection. Science (2005) 3.49

Parallel chemical genetic and genome-wide RNAi screens identify cytokinesis inhibitors and targets. PLoS Biol (2004) 3.39

Integrated activity of PDZ protein complexes regulates epithelial polarity. Nat Cell Biol (2003) 3.38

Evidence of off-target effects associated with long dsRNAs in Drosophila melanogaster cell-based assays. Nat Methods (2006) 3.29

Genome-wide RNAi screen for host factors required for intracellular bacterial infection. Science (2005) 3.28

High-throughput RNAi screening in cultured cells: a user's guide. Nat Rev Genet (2006) 3.22

Hierarchical rules for Argonaute loading in Drosophila. Mol Cell (2009) 3.20

The emergence of geometric order in proliferating metazoan epithelia. Nature (2006) 3.13

Genomic screening with RNAi: results and challenges. Annu Rev Biochem (2010) 3.08

Signaling role of hemocytes in Drosophila JAK/STAT-dependent response to septic injury. Dev Cell (2003) 3.05

A functional RNAi screen for regulators of receptor tyrosine kinase and ERK signalling. Nature (2006) 3.00

GFP reporters detect the activation of the Drosophila JAK/STAT pathway in vivo. Gene Expr Patterns (2006) 2.96

Genome-wide RNAi screen reveals a specific sensitivity of IRES-containing RNA viruses to host translation inhibition. Genes Dev (2005) 2.83

FOXO/4E-BP signaling in Drosophila muscles regulates organism-wide proteostasis during aging. Cell (2010) 2.66

Genome-wide RNAi analysis of JAK/STAT signaling components in Drosophila. Genes Dev (2005) 2.63

Temperature-sensitive control of protein activity by conditionally splicing inteins. Nat Biotechnol (2004) 2.62

Vector and parameters for targeted transgenic RNA interference in Drosophila melanogaster. Nat Methods (2007) 2.59

A screen for morphological complexity identifies regulators of switch-like transitions between discrete cell shapes. Nat Cell Biol (2013) 2.59

Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence. Genome Res (2010) 2.56

The transcriptional diversity of 25 Drosophila cell lines. Genome Res (2010) 2.47

Diversity and dynamics of the Drosophila transcriptome. Nature (2014) 2.47

A Drosophila resource of transgenic RNAi lines for neurogenetics. Genetics (2009) 2.45

FlyRNAi: the Drosophila RNAi screening center database. Nucleic Acids Res (2006) 2.43

The roles of JAK/STAT signaling in Drosophila immune responses. Immunol Rev (2004) 2.37

A genome-wide RNA interference screen in Drosophila melanogaster cells for new components of the Hh signaling pathway. Nat Genet (2005) 2.26

Muscle mitohormesis promotes longevity via systemic repression of insulin signaling. Cell (2013) 2.21

Genetic screening for signal transduction in the era of network biology. Cell (2007) 2.19

Optimized gene editing technology for Drosophila melanogaster using germ line-specific Cas9. Proc Natl Acad Sci U S A (2013) 2.13

Drosophila cytokine unpaired 2 regulates physiological homeostasis by remotely controlling insulin secretion. Cell (2012) 2.06

The PDGF/VEGF receptor controls blood cell survival in Drosophila. Dev Cell (2004) 2.06

The Jak/STAT pathway in model organisms: emerging roles in cell movement. Dev Cell (2002) 2.05

Design and implementation of high-throughput RNAi screens in cultured Drosophila cells. Nat Protoc (2007) 2.05

Control of the mitotic cleavage plane by local epithelial topology. Cell (2011) 2.04

Molecular mechanisms of epithelial morphogenesis. Annu Rev Cell Dev Biol (2002) 2.00

Comparative analysis of argonaute-dependent small RNA pathways in Drosophila. Mol Cell (2008) 1.95

COPI activity coupled with fatty acid biosynthesis is required for viral replication. PLoS Pathog (2006) 1.95

Entry is a rate-limiting step for viral infection in a Drosophila melanogaster model of pathogenesis. Nat Immunol (2003) 1.90

The Hippo tumor suppressor pathway regulates intestinal stem cell regeneration. Development (2010) 1.89

Synergy between bacterial infection and genetic predisposition in intestinal dysplasia. Proc Natl Acad Sci U S A (2009) 1.88

Phosphorylation networks regulating JNK activity in diverse genetic backgrounds. Science (2008) 1.86

Complementary genomic screens identify SERCA as a therapeutic target in NOTCH1 mutated cancer. Cancer Cell (2013) 1.86

High-throughput RNA interference screens in Drosophila tissue culture cells. Methods Enzymol (2005) 1.83

Extrusion and death of DPP/BMP-compromised epithelial cells in the developing Drosophila wing. Science (2005) 1.81

Drosophila and the genetics of the internal milieu. Nature (2007) 1.79

An integrative approach to ortholog prediction for disease-focused and other functional studies. BMC Bioinformatics (2011) 1.79

Coordinate regulation of small temporal RNAs at the onset of Drosophila metamorphosis. Dev Biol (2003) 1.79

In vivo imaging of Drosophila melanogaster pupae with mesoscopic fluorescence tomography. Nat Methods (2007) 1.78

Comparative RNAi screening identifies a conserved core metazoan actinome by phenotype. J Cell Biol (2011) 1.75

A sensitized genetic screen to identify novel regulators and components of the Drosophila janus kinase/signal transducer and activator of transcription pathway. Genetics (2003) 1.63

Conserved microRNA targeting in Drosophila is as widespread in coding regions as in 3'UTRs. Proc Natl Acad Sci U S A (2010) 1.62

Notch modulates Wnt signalling by associating with Armadillo/beta-catenin and regulating its transcriptional activity. Development (2005) 1.62

neurotic, a novel maternal neurogenic gene, encodes an O-fucosyltransferase that is essential for Notch-Delta interactions. Development (2003) 1.60

Identification of neural outgrowth genes using genome-wide RNAi. PLoS Genet (2008) 1.60

Role of autophagy in glycogen breakdown and its relevance to chloroquine myopathy. PLoS Biol (2013) 1.59

Processing of Drosophila endo-siRNAs depends on a specific Loquacious isoform. RNA (2009) 1.57

Unusually effective microRNA targeting within repeat-rich coding regions of mammalian mRNAs. Genome Res (2011) 1.53

Functional screening identifies miR-315 as a potent activator of Wingless signaling. Proc Natl Acad Sci U S A (2007) 1.53

Analysis of twenty-four Gal4 lines in Drosophila melanogaster. Genesis (2002) 1.51

A genome-wide RNA interference screen identifies putative chromatin regulators essential for E2F repression. Proc Natl Acad Sci U S A (2007) 1.50

Hedgehog signal transduction: recent findings. Curr Opin Genet Dev (2002) 1.48

RNAi screening: new approaches, understandings, and organisms. Wiley Interdiscip Rev RNA (2011) 1.48

Cellular phenotype recognition for high-content RNA interference genome-wide screening. J Biomol Screen (2008) 1.47

Using RNAi to catch Drosophila genes in a web of interactions: insights into cancer research. Oncogene (2004) 1.43

Gamma-secretase/presenilin inhibitors for Alzheimer's disease phenocopy Notch mutations in Drosophila. FASEB J (2002) 1.43

Tailoring the genome: the power of genetic approaches. Nat Genet (2003) 1.43

The Hippo signaling pathway interactome. Science (2013) 1.42

Activation of the JNK pathway during dorsal closure in Drosophila requires the mixed lineage kinase, slipper. Genes Dev (2002) 1.42

Integration of Insulin receptor/Foxo signaling and dMyc activity during muscle growth regulates body size in Drosophila. Development (2009) 1.41

SALS, a WH2-domain-containing protein, promotes sarcomeric actin filament elongation from pointed ends during Drosophila muscle growth. Dev Cell (2007) 1.40

Rasp, a putative transmembrane acyltransferase, is required for Hedgehog signaling. Development (2002) 1.37

Apicobasal polarization: epithelial form and function. Curr Opin Cell Biol (2003) 1.37

The Wingless morphogen gradient is established by the cooperative action of Frizzled and Heparan Sulfate Proteoglycan receptors. Dev Biol (2004) 1.35

Intramyocellular fatty-acid metabolism plays a critical role in mediating responses to dietary restriction in Drosophila melanogaster. Cell Metab (2012) 1.34

False negative rates in Drosophila cell-based RNAi screens: a case study. BMC Genomics (2011) 1.34

Using iterative cluster merging with improved gap statistics to perform online phenotype discovery in the context of high-throughput RNAi screens. BMC Bioinformatics (2008) 1.33

A genomewide RNA interference screen for modifiers of aggregates formation by mutant Huntingtin in Drosophila. Genetics (2010) 1.32

Functional screening in Drosophila identifies Alzheimer's disease susceptibility genes and implicates Tau-mediated mechanisms. Hum Mol Genet (2013) 1.32

BMP signaling is required for controlling somatic stem cell self-renewal in the Drosophila ovary. Dev Cell (2005) 1.31

RNA interference screening in Drosophila primary cells for genes involved in muscle assembly and maintenance. Development (2008) 1.30

Control of proinflammatory gene programs by regulated trimethylation and demethylation of histone H4K20. Mol Cell (2012) 1.29

RNAiCut: automated detection of significant genes from functional genomic screens. Nat Methods (2009) 1.28

Mechanisms of skeletal muscle aging: insights from Drosophila and mammalian models. Dis Model Mech (2013) 1.28

Cellular processes associated with germ band retraction in Drosophila. Dev Biol (2002) 1.27

Recruitment of scribble to the synaptic scaffolding complex requires GUK-holder, a novel DLG binding protein. Curr Biol (2002) 1.25

A Drosophila homolog of cyclase-associated proteins collaborates with the Abl tyrosine kinase to control midline axon pathfinding. Neuron (2002) 1.23