FlyFactorSurvey

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FlyFactorSurvey

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:22.672206

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flyfactorsurvey

metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:22.672206

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Other names: flyfactorsurvey

Drosophila transcription factor binding specificities determined using the bacterial one-hybrid system

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FlyFactorSurvey: a database of Drosophila transcription factor binding specificities determined using the bacterial one-hybrid system
PMID: 21097781

metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:22.672206

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http://dx.doi.org/10.1093/nar/gkq858

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

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• FlyFactorSurvey: a database of Drosophila transcription factor binding specificities determined using the bacterial one-hybrid system PubMed citations: 122.

  122 articles citing: FlyFactorSurvey: a database of Drosophila transcription factor binding specificities determined using the bacterial one-hybrid system

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  The transcription factor Xrp1 orchestrates both reduced translation and cell competition upon defective ribosome assembly or function. PMID:35179490

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  Quantitative-enhancer-FACS-seq (QeFS) reveals epistatic interactions among motifs within transcriptional enhancers in developing Drosophila tissue. PMID:34930411

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  Two promoters integrate multiple enhancer inputs to drive wild-type knirps expression in the Drosophila melanogaster embryo. PMID:34849867

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  A cis-regulatory element promoting increased transcription at low temperature in cultured ectothermic Drosophila cells. PMID:34711176

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  Memes: A motif analysis environment in R using tools from the MEME Suite. PMID:34570758

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  Tramtrack acts during late pupal development to direct ant caste identity. PMID:34550980

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  A combinatorial cis-regulatory logic restricts color-sensing Rhodopsins to specific photoreceptor subsets in Drosophila. PMID:34161320

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  MOCCA: a flexible suite for modelling DNA sequence motif occurrence combinatorics. PMID:33962556

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  Drosophila Fezf functions as a transcriptional repressor to direct layer-specific synaptic connectivity in the fly visual system. PMID:33766917

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  Fruitless decommissions regulatory elements to implement cell-type-specific neuronal masculinization. PMID:33600447

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  Individual differences in honey bee behavior enabled by plasticity in brain gene regulatory networks. PMID:33350385

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  Regulatory encoding of quantitative variation in spatial activity of a Drosophila enhancer. PMID:33268361

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  High-resolution analysis of differential gene expression during skeletal muscle atrophy and programmed cell death. PMID:32926651

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  Damage-responsive, maturity-silenced enhancers regulate multiple genes that direct regeneration in Drosophila. PMID:32490812

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  Developmental plasticity shapes social traits and selection in a facultatively eusocial bee. PMID:32471944

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  Insights gained from a comprehensive all-against-all transcription factor binding motif benchmarking study. PMID:32393327

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  Identification of a master transcription factor and a regulatory mechanism for desiccation tolerance in the anhydrobiotic cell line Pv11. PMID:32191739

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  Expression of E93 provides an instructive cue to control dynamic enhancer activity and chromatin accessibility during development. PMID:32094114

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  Global shape of Toll activation is determined by wntD enhancer properties. PMID:31900360

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  Sharing DNA-binding information across structurally similar proteins enables accurate specificity determination. PMID:31777934

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  Transcriptional Silencers in Drosophila Serve a Dual Role as Transcriptional Enhancers in Alternate Cellular Contexts. PMID:31704182

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  Serpent/dGATAb regulates Laminin B1 and Laminin B2 expression during Drosophila embryogenesis. PMID:31685844

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  The CAF-1 complex couples Hippo pathway target gene expression and DNA replication. PMID:31553691

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  Changes in chromatin accessibility ensure robust cell cycle exit in terminally differentiated cells. PMID:31479438

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  Multilevel regulation of the glass locus during Drosophila eye development. PMID:31299050

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  A Comprehensive Drosophila melanogaster Transcription Factor Interactome. PMID:30995488

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  Enabling cell-type-specific behavioral epigenetics in Drosophila: a modified high-yield INTACT method reveals the impact of social environment on the epigenetic landscape in dopaminergic neurons. PMID:30967153

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  Inference of Transcription Factor Regulation Patterns Using Gene Expression Covariation in Natural Populations of Drosophila melanogaster. PMID:30739944

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  Draft Genome Assembly and Population Genetics of an Agricultural Pollinator, the Solitary Alkali Bee (Halictidae: Nomia melanderi). PMID:30642875

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  Aristaless Controls Butterfly Wing Color Variation Used in Mimicry and Mate Choice. PMID:30415702

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  Correlated Evolution of Two Copulatory Organs via a Single cis-Regulatory Nucleotide Change. PMID:30344115

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  An information theoretic treatment of sequence-to-expression modeling. PMID:30256780

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  Hunchback is counter-repressed to regulate even-skipped stripe 2 expression in Drosophila embryos. PMID:30192762

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  cis-regulatory architecture of a short-range EGFR organizing center in the Drosophila melanogaster leg. PMID:30142157

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  Lateral inhibition: Two modes of non-autonomous negative autoregulation by neuralized. PMID:30028887

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  Analysis of Genetic Variation Indicates DNA Shape Involvement in Purifying Selection. PMID:29850830

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  Degenerate Pax2 and Senseless binding motifs improve detection of low-affinity sites required for enhancer specificity. PMID:29617378

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  Cooperative recruitment of Yan via a high-affinity ETS supersite organizes repression to confer specificity and robustness to cardiac cell fate specification. PMID:29535190

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  Robust ΦC31-Mediated Genome Engineering in Drosophila melanogaster Using Minimal attP/attB Phage Sites. PMID:29523637

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  Cooption of heat shock regulatory system for anhydrobiosis in the sleeping chironomid Polypedilum vanderplanki. PMID:29463761

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  Natural variation in stochastic photoreceptor specification and color preference in Drosophila. PMID:29251595

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  Evidence for a hierarchical transcriptional circuit in Drosophila male germline involving testis-specific TAF and two gene-specific transcription factors, Mod and Acj6. PMID:29235675

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  Synthetic enhancer design by in silico compensatory evolution reveals flexibility and constraint in cis-regulation. PMID:29187214

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  CrusTF: a comprehensive resource of transcriptomes for evolutionary and functional studies of crustacean transcription factors. PMID:29178828

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  A proteomic atlas of insulin signalling reveals tissue-specific mechanisms of longevity assurance. PMID:28916541

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  Nuclear receptors connect progenitor transcription factors to cell cycle control. PMID:28687780

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  Evolution and multiple roles of the Pancrustacea specific transcription factor zelda in insects. PMID:28671979

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  RSAT matrix-clustering: dynamic exploration and redundancy reduction of transcription factor binding motif collections. PMID:28591841

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  An Enhancer's Length and Composition Are Shaped by Its Regulatory Task. PMID:28588608

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  Hormone-dependent control of developmental timing through regulation of chromatin accessibility. PMID:28536147

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  Comparative transcriptome analysis of isogenic cell line models and primary cancers links capicua (CIC) loss to activation of the MAPK signalling cascade. PMID:28295365

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  Regulatory logic driving stable levels of defective proventriculus expression during terminal photoreceptor specification in flies. PMID:28126841

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  Stable Binding of the Conserved Transcription Factor Grainy Head to its Target Genes Throughout Drosophila melanogaster Development. PMID:28007888

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  Chromatin profiling of Drosophila CNS subpopulations identifies active transcriptional enhancers. PMID:27802137

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  The transcription factor Ets21C drives tumor growth by cooperating with AP-1. PMID:27713480

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  Genome-wide identification of Drosophila dorso-ventral enhancers by differential histone acetylation analysis. PMID:27678375

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  Transcriptional activity of the short gastrulation primary enhancer in the ventral midline requires its early activity in the presumptive neurogenic ectoderm. PMID:27616358

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  CLIMP: Clustering Motifs via Maximal Cliques with Parallel Computing Design. PMID:27487245

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  Nucleotide Interdependency in Transcription Factor Binding Sites in the Drosophila Genome. PMID:27330274

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  Spatial distribution of predicted transcription factor binding sites in Drosophila ChIP peaks. PMID:27264535

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  Intestinal stem cell response to injury: lessons from Drosophila. PMID:27137186

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  Two temporal functions of Glass: Ommatidium patterning and photoreceptor differentiation. PMID:27105580

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  Integration of Orthogonal Signaling by the Notch and Dpp Pathways in Drosophila. PMID:26975664

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  Widespread colocalization of the Drosophila histone acetyltransferase homolog MYST5 with DREF and insulator proteins at active genes. PMID:26894919

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  Localized epigenetic silencing of a damage-activated WNT enhancer limits regeneration in mature Drosophila imaginal discs. PMID:26840050

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  Single-base pair differences in a shared motif determine differential Rhodopsin expression. PMID:26785491

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  Determination of specificity influencing residues for key transcription factor families. PMID:26753103

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  Multi-reporter selection for the design of active and more specific zinc-finger nucleases for genome editing. PMID:26738816

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  Gene Regulatory Mechanisms Underlying the Spatial and Temporal Regulation of Target-Dependent Gene Expression in Drosophila Neurons. PMID:26713626

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  Evidence for a common evolutionary rate in metazoan transcriptional networks. PMID:26682651

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  Predicting the impact of promoter variability on regulatory outputs. PMID:26675057

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  Klf15 Is Critical for the Development and Differentiation of Drosophila Nephrocytes. PMID:26301956

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  Reliable scaling of position weight matrices for binding strength comparisons between transcription factors. PMID:26289072

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  Absence of canonical marks of active chromatin in developmentally regulated genes. PMID:26280901

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  motifbreakR: an R/Bioconductor package for predicting variant effects at transcription factor binding sites. PMID:26272984

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  miR-93/miR-106b/miR-375-CIC-CRABP1: a novel regulatory axis in prostate cancer progression. PMID:26124181

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  Regulation of transcription factors on sexual dimorphism of fig wasps. PMID:26031454

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  Social evolution. Genomic signatures of evolutionary transitions from solitary to group living. PMID:25977371

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  Deconvolving the recognition of DNA shape from sequence. PMID:25843630

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  Integrating motif, DNA accessibility and gene expression data to build regulatory maps in an organism. PMID:25791631

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  Conservation of transcription factor binding specificities across 600 million years of bilateria evolution. PMID:25779349

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  ChIP-nexus enables improved detection of in vivo transcription factor binding footprints. PMID:25751057

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  Pervasive variation of transcription factor orthologs contributes to regulatory network evolution. PMID:25748510

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  Identifying transcriptional cis-regulatory modules in animal genomes. PMID:25704908

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  Genome-wide features of neuroendocrine regulation in Drosophila by the basic helix-loop-helix transcription factor DIMMED. PMID:25634895

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  A systematic survey of the Cys2His2 zinc finger DNA-binding landscape. PMID:25593323

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  De novo prediction of cis-regulatory elements and modules through integrative analysis of a large number of ChIP datasets. PMID:25442502

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  Determination and inference of eukaryotic transcription factor sequence specificity. PMID:25215497

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  Evidence for deep regulatory similarities in early developmental programs across highly diverged insects. PMID:25173756

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  Capicua is involved in Dorsal-mediated repression of zerknüllt expression in Drosophila embryo. PMID:25059278

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  iRegulon: from a gene list to a gene regulatory network using large motif and track collections. PMID:25058159

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  Motif enrichment tool. PMID:24860165

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  Enhancer diversity and the control of a simple pattern of Drosophila CNS midline cell expression. PMID:24854999

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  DMINDA: an integrated web server for DNA motif identification and analyses. PMID:24753419

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  High-resolution mapping defines the cooperative architecture of Polycomb response elements. PMID:24668908

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  Spatial expression of transcription factors in Drosophila embryonic organ development. PMID:24359758

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  OnTheFly: a database of Drosophila melanogaster transcription factors and their binding sites. PMID:24271386

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  TFBSshape: a motif database for DNA shape features of transcription factor binding sites. PMID:24214955

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  De novo prediction of DNA-binding specificities for Cys2His2 zinc finger proteins. PMID:24097433

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  Flanking sequence context-dependent transcription factor binding in early Drosophila development. PMID:24093548

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  Genome-wide analyses of Shavenbaby target genes reveals distinct features of enhancer organization. PMID:23972280

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  Computational identification of diverse mechanisms underlying transcription factor-DNA occupancy. PMID:23935523

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  The BTB-zinc finger transcription factor abrupt acts as an epithelial oncogene in Drosophila melanogaster through maintaining a progenitor-like cell state. PMID:23874226

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  Highly parallel assays of tissue-specific enhancers in whole Drosophila embryos. PMID:23852450

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  Widespread evidence of cooperative DNA binding by transcription factors in Drosophila development. PMID:23847101

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  Twine: display and analysis of cis-regulatory modules. PMID:23658420

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  Transcriptional and epigenetic signatures of zygotic genome activation during early Drosophila embryogenesis. PMID:23560912

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  Global analysis of Drosophila Cys₂-His₂ zinc finger proteins reveals a multitude of novel recognition motifs and binding determinants. PMID:23471540

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  CBS: an open platform that integrates predictive methods and epigenetics information to characterize conserved regulatory features in multiple Drosophila genomes. PMID:23228284

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  Comparative motif discovery combined with comparative transcriptomics yields accurate targetome and enhancer predictions. PMID:23070853

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  A complete workflow for the analysis of full-size ChIP-seq (and similar) data sets using peak-motifs. PMID:22836136

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  i-cisTarget: an integrative genomics method for the prediction of regulatory features and cis-regulatory modules. PMID:22718975

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  Recognition models to predict DNA-binding specificities of homeodomain proteins. PMID:22689783

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  Diversity in genetic in vivo methods for protein-protein interaction studies: from the yeast two-hybrid system to the mammalian split-luciferase system. PMID:22688816

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  Conserved Motifs and Prediction of Regulatory Modules in Caenorhabditis elegans. PMID:22540038

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  Exploring the DNA-recognition potential of homeodomains. PMID:22539651

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  Response to the BMP gradient requires highly combinatorial inputs from multiple patterning systems in the Drosophila embryo. PMID:22513375

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  DNA-protein interactions: methods for detection and analysis. PMID:22399265

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  The TAGteam motif facilitates binding of 21 sequence-specific transcription factors in the Drosophila embryo. PMID:22247430

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  Improved accuracy of supervised CRM discovery with interpolated Markov models and cross-species comparison. PMID:21821659

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  Genome Surveyor 2.0: cis-regulatory analysis in Drosophila. PMID:21593125

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  A modified bacterial one-hybrid system yields improved quantitative models of transcription factor specificity. PMID:21507886
• http://dx.doi.org/10.1093/nar/gkq858

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More detailed information about this field from each metasource. ×

nucleotide sequence databases

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

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transcriptional regulator sites and transcription factors

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

---

transcription factors and regulatory sites

metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:22.672206

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dna binding sites

metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:22.672206

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gene expression

metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:22.672206

---

nucleic acid sites, features and motifs

metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:22.672206

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nucleic acid sequence transcription transcription factors and regulatory sites dna binding sites gene expression nucleic acid sites, features and motifs