Motif and regulatory element prediction programs
Genome-wide analysis of cis-regulatory element structure and discovery of motif-driven gene co-expression networks in grapevine
... Together, these assessments have elucidated many potential targets of a large repertoire of grapevine TFs for the first time. Large-scale transcriptome analysis using the developmental atlas dataset and a selection of ...
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Bacterial regulon modeling and prediction based on systematic \u3ci\u3ecis\u3c/i\u3e regulatory motif analyses
... www.nature.com/scientificreports/ motif analyses and accurate operon identification into a phylogenetic footprinting ...conserved motif information, to solve the regulon problem at a genome scale; (ii) a ...
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The jPREdictor and its application to motif discovery, motif clustering and the prediction of Polycomb/Trithorax response elements
... Pho motif. This motif was always embedded into larger motifs, either fully as GCCAT or without the starting ...Zeste motif, namely T GAGCG, was reported at rank 7 for the low-planted ...Zeste ...
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Regulatory role for a conserved motif adjacent to the homeodomain of Hox10 proteins
... this motif rendered Hoxa10 virtually inactive in our transgenic ...group-10-specific element(s) is required to activate the rib- repressing program upon interaction with ...
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MotifLab: a tools and data integration workbench for motif discovery and regulatory sequence analysis
... guide motif discovery Motif discovery is a challenging problem since it involves searching for short and often degenerate patterns embed- ded in potentially long ...Some motif discovery pro- grams ...
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Comparative Analysis of Regulatory Motif Discovery Tools for Transcription Factor Binding Sites
... ic regulatory motifs or transcrip- tion factor binding sites (TFBSs) in non-coding DNA sequences, which is essential to elucidate transcriptional regulatory networks, has emerged as an obstacle that ...
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Motif-Blind, Genome-Wide Discovery of cis-Regulatory Modules in Drosophila and Mouse
... successful prediction as either a module with expression consistent with the training set, or as a module capturing some aspect of its associated gene’s expression ...supervised prediction framework to ...
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On the mechanistic nature of epistasis in a canonical cis-regulatory element
... cis-regulatory element consisting of overlapping RNA polymerase and repressor binding ...null prediction for epistasis between mutations across DNA-binding ...
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Revealing signaling pathway deregulation by using gene expression signatures and regulatory motif analysis
... by motif analysis can guide the identification of common regulatory programs driv- ing different signatures with small overlaps, as well as the identification of diverse regulatory ...
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In silico identification and experimental validation of PmrAB targets in Salmonella typhimuriumby regulatory motif detection
... Moreover, regulatory systems such as PmrAB might have acquired some very species-specific ...specialized regulatory systems, motifs are likely to be present in the intergenic sequences of a selected subset ...
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Effects of sterol regulatory element-binding protein (SREBP) in chickens
... Sterol regulatory element binding proteins (SREBP) are basic helix-loop-helix-leucine zipper (bHLH-Zip) tran- scription factors that play an important role in control- ling genes involved in the ...
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The CAGT motif functions as an initiator element during early transcription of the baculovirus transregulator ie-1.
... CAGT motif functioning as a novel late promoter that lacks a con- sensus TAAG ...initiator element also directs late transcription from polyomavirus ...distinct regulatory elements that reg- ulate ...
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Research on the Influence of Network Motif on Link Prediction
... link prediction mostly based on network structure, the node information and so ...network motif is also one of the basic topology of the network, which is between the network individual and ...The ...
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Content Outline for the S101 Regulatory Element
... S101 Regulatory Element Program (the General Program or S101) is required for Series 7 registered persons and those persons in all other registration categories except principal/supervisor or Series 6 ...
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Regulatory motif discovery using a population clustering evolutionary algorithm
... correct motif was found, the average length of motifs discovered by the algorithm, and an example of an evolved solution for each data ...a motif with a high level of similarity to the target motif ...
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Quality Programs for Regulatory Compliance
... – Which states have requirements that exceed PCI-DSS requirements for protecting card holder data? – What is my exposure to a data breach at one of my third party vendors? v What things are critical to know about my ...
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Epistatic interactions in the arabinose cis-regulatory element
... *Corresponding author: E-mail: [email protected]. Associate editor: Patricia Wittkopp Abstract Changes in gene expression are an important mode of evolution; however, the proximate mechanism of these changes is poorly ...
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Detection of Regulatory Motif in Eukaryotes by Self Organizing Map Neural Networks
... the regulatory motifs known as Transcriptional factor binding ...(regulatory motif) of size 6-12 that resides in close proximity to the co-regulated genes in the ...of regulatory sequences is ...
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Finite Element Simulation for springback prediction compensation
... The accuracy of the die shape is next checked by doing a forming and springback simulation. If the resulting springback shape is not the same as the target, another cycle will be carried out from the first step. Siswanto ...
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Prediction of Signed Protein Kinase Regulatory Circuits.
... Previous efforts to produce kinome-scale inferences of regula- tory relationships have depended on scaffolding data-driven predictions to existing protein networks. For example, Rudolph et al. (2016) derived signaling ...
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