Computational prediction and experimental validation of novel Hedgehog-responsive enhancers linked to genes of the Hedgehog pathway

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Computational prediction and experimental validation of novel Hedgehog-responsive enhancers linked to genes of the Hedgehog pathway is …
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scholarly articleQ13442814

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P6179Dimensions Publication ID1046926991
P356DOI10.1186/S12861-016-0106-0
P932PMC publication ID4765071
P698PubMed publication ID26912062
P5875ResearchGate publication ID295901227

P2093author name stringNeil Richards
Deborah L Gumucio
Gary Schneider
Katherine Gurdziel
Kyle R Vogt
P2860cites workA high-resolution anatomical atlas of the transcriptome in the mouse embryoQ21145782
Sonic Hedgehog-induced activation of the Gli1 promoter is mediated by GLI3Q22009022
GLI3 mutations in human disorders mimic Drosophila cubitus interruptus protein functions and localizationQ22009030
An integrated encyclopedia of DNA elements in the human genomeQ22122150
Distinct roles of PTCH2 splice variants in Hedgehog signallingQ24530681
GenePaint.org: an atlas of gene expression patterns in the mouse embryoQ24600734
Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identitiesQ24617969
Histone H3K27ac separates active from poised enhancers and predicts developmental stateQ24628758
Roles for Hedgehog signaling in adult organ homeostasis and repairQ26823066
Quantifying similarity between motifsQ27499384
WebLogo: A Sequence Logo GeneratorQ27860646
Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genomeQ28131828
Vertebrate Hedgehog signalling modulated by induction of a Hedgehog-binding proteinQ28137935
Regulation of Gli2 and Gli3 activities by an amino-terminal repression domain: implication of Gli2 and Gli3 as primary mediators of Shh signalingQ28141240
Genomic characterization of Gli-activator targets in sonic hedgehog-mediated neural patterningQ28507384
Gas1 extends the range of Hedgehog action by facilitating its signalingQ28585028
Mouse Kif7/Costal2 is a cilia-associated protein that regulates Sonic hedgehog signalingQ28589839
Defective bone formation in Krox-20 mutant miceQ28591895
The cell surface membrane proteins Cdo and Boc are components and targets of the Hedgehog signaling pathway and feedback network in miceQ28592320
The zinc finger transcription factor Gli2 mediates bone morphogenetic protein 2 expression in osteoblasts in response to hedgehog signalingQ28593888
Dispatched, a novel sterol-sensing domain protein dedicated to the release of cholesterol-modified hedgehog from signaling cellsQ28609755
The primary cilium: a signalling centre during vertebrate developmentQ29547197
GREAT improves functional interpretation of cis-regulatory regionsQ29614846
Developmental roles and clinical significance of hedgehog signalingQ29614988
Hedgehog: functions and mechanismsQ29619190
kmer-SVM: a web server for identifying predictive regulatory sequence features in genomic data setsQ30648830
Non-consensus GLI binding sites in Hedgehog target gene regulationQ33523633
DREME: motif discovery in transcription factor ChIP-seq dataQ33890212
Hedgehog pathway-regulated gene networks in cerebellum development and tumorigenesisQ34006589
Absence of a simple code: how transcription factors read the genomeQ34111752
Overlapping roles and collective requirement for the coreceptors GAS1, CDO, and BOC in SHH pathway functionQ34191681
Cholesterol modification of Hedgehog family proteinsQ34809793
MEME-ChIP: motif analysis of large DNA datasetsQ35019674
Discriminative prediction of mammalian enhancers from DNA sequence.Q35581580
Inferring direct DNA binding from ChIP-seqQ36280574
Neural-specific Sox2 input and differential Gli-binding affinity provide context and positional information in Shh-directed neural patterningQ36496591
A genome-scale analysis of the cis-regulatory circuitry underlying sonic hedgehog-mediated patterning of the mammalian limbQ36919931
Essential role for ligand-dependent feedback antagonism of vertebrate hedgehog signaling by PTCH1, PTCH2 and HHIP1 during neural patterningQ37080805
Building it up and taking it down: the regulation of vertebrate ciliogenesisQ37147143
The conserved role of Krox-20 in directing Hox gene expression during vertebrate hindbrain segmentation.Q37348589
Hedgehog signaling in development and cancer.Q37350250
Gli2 trafficking links Hedgehog-dependent activation of Smoothened in the primary cilium to transcriptional activation in the nucleusQ37465396
Interactions between Hedgehog proteins and their binding partners come into viewQ37789106
Transcription factors: from enhancer binding to developmental controlQ38032407
The mechanisms of Hedgehog signalling and its roles in development and diseaseQ38110420
Gene expression analysis of the hedgehog signaling cascade in the chick midbrain and spinal cordQ38302705
Genome-wide prediction of mammalian enhancers based on analysis of transcription-factor binding affinityQ38316809
Scube2 enhances proteolytic Shh processing from the surface of Shh-producing cellsQ39024472
The hedgehog regulated oncogenes Gli1 and Gli2 block myoblast differentiation by inhibiting MyoD-mediated transcriptional activationQ40233567
Expression of the PTCH1 tumor suppressor gene is regulated by alternative promoters and a single functional Gli-binding siteQ40566346
Boc and Gas1 each form distinct Shh receptor complexes with Ptch1 and are required for Shh-mediated cell proliferationQ42103359
Scube/You activity mediates release of dually lipid-modified Hedgehog signal in soluble formQ42221858
P304page(s)4
P577publication date2016-02-24
P1433published inBMC Developmental BiologyQ15761839
P1476titleComputational prediction and experimental validation of novel Hedgehog-responsive enhancers linked to genes of the Hedgehog pathway
P478volume16

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cites work (P2860)
Q92867158Atoh8 acts as a regulator of chondrocyte proliferation and differentiation in endochondral bones
Q36908863Hedgehog signaling is a potent regulator of liver lipid metabolism and reveals a GLI-code associated with steatosis.
Q39957055Transcriptome of the inner circular smooth muscle of the developing mouse intestine: Evidence for regulation of visceral smooth muscle genes by the hedgehog target gene, cJun