FACTOR BINDING
Insulin-like growth factor binding protein 2: A prognostic biomarker for heart failure hardly redundant with natriuretic peptides
... Growth Factor Binding Protein 2: A prognostic biomarker for heart failure hardly redundant with natriuretic peptides Nicolas Girerd 1,2 , Emmanuel Bresso 3 , Marie-Dominique Devignes 3 , Patrick Rossignol ...
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MORPHEUS, a Webtool for Transcription Factor Binding Analysis Using Position Weight Matrices with Dependency.
... their binding sites in the genome are a key factor driving ...transcription factor binding sites (TFBS) presence and affinity from mere inspection of genomic ...DNA binding models they ...
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Computation identification of transcription factor binding using DNase-seq
... Previous approaches to identification of transcription factor binding through DNase- seq can be classified into two groups: motif-free and motif-based. Motif-free ap- p[r] ...
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JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles.
... transcription factor (TF) binding profiles represent- ing transcription factor binding preferences as posi- tion frequency matrices for multiple species in six taxonomic ...TF binding ...
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JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework
... Molecular Biology, University of Bergen, N-5008 Bergen, Norway and 13 Department of Cancer Genetics, Institute for Cancer Research, Oslo University Hospital Radiumhospitalet, 0310 Oslo, Norway Nucleic Acids Research ...
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JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles.
... the binding to the two ...reflect binding properties of Nkx2-5 (23). Finally, we introduce two binding profiles associated to the plant TF RAV1, as it can bind to two unrelated motifs by using two ...
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Substitution of hexon hypervariable region 5 of adenovirus serotype 5 abrogates blood factor binding and limits gene transfer to liver.
... To enhance Ad entry into refractory cells, targeting motifs were incorporated into capsid proteins displaying regions of low structural constraint, such as fiber HI loops, 8 penton-base RGD loops, 9 and hexon ...
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Integrative analysis of tissue-specific methylation and alternative splicing identifies conserved transcription factor binding motifs
... These studies emphasize the need for an unbiased analysis of genome-wide DNA methylation to identify patterns regulating tissue-specific alternative splicing. We previously performed a detailed survey of DNA methyla- tion ...
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Multi-species, multi-transcription factor binding highlights conserved control of tissue-specific biological pathways
... We asked whether CRMs or singletons differ with regards to the quality of their TF binding motifs. Peaks for each TF were scanned using the RSAT tool matrix-scan with the best position weight matri- ces (PWM) for ...
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JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework
... scription factor (TF)-binding profiles stored as posi- tion frequency matrices (PFMs) and TF flexible mod- els (TFFMs) for TFs across multiple species in six tax- onomic ...
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De novo motif identification improves the accuracy of predicting transcription factor binding sites in ChIP-Seq data analysis
... In the fourth step we select binding sites out of candi- date peak dataset based on motif occurrence and depth of coverage information. The raw peak candidate prediction set contains a large number of false ...
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JASPAR 2020: update of the open-access database of transcription factor binding profiles.
... INTRODUCTION Transcription factors (TFs) are proteins involved in the regulation of gene expression at the transcriptional level ( 1 ). They interact with DNA in a sequence-specific man- ner through their ...
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Building Transcription Factor Binding Site Models to Understand Gene Regulation in Plants
... matrix) DWM considers the 16 combinations of dinucleotide instead of the 4 nucleotides used for PWM. Dinucleotides N.A DWM logo (Siddharthan, 2010) BEM (binding energy model) BEM introduces energy parameters of ...
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Analysis of variation at transcription factor binding sites in Drosophila and humans
... binding across individuals hold much ...CTCF binding maps [16,44], it was reassuring to confirm that the loss of CTCF binding associated with a TFBS mutation is generally propor- tionate to its ...
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TATA binding protein associated factor 3 (TAF3) interacts with p53 and inhibits its function.
... transcription factor-binding domain responsible for interaction with other, yet uni- dentified transcription factors as ...vitro binding between bacterially expressed Dmp53 and in vitro translated ...
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Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights
... DNA binding specificity survey of ...DNA binding specificities for essentially all ...DNA binding specificity ...DNA binding proteins; these proteins had only putative or hypothesized domains ...
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Steroidogenic Factor-1 Controls the Aldose Reductase akr1b7 Gene Promoter in Transgenic Mice through an Atypical Binding Site
... this factor functions in a dose-dependent manner in both species (36 ...trans-acting factor levels, but also by the number (or the accessibility) of its cis-acting sequences (SFREs), is in good agreement ...
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The Human Transcription Factor IID Subunit Human TATA-binding Protein-associated Factor 28 Interacts in a Ligand-reversible Manner with the Vitamin D 3 and Thyroid Hormone Receptors
... MATERIALS AND METHODS Construction of Recombinant Plasmids—The hTAF II expression vec- tors are as described previously (29, 33–35). The mouse RXR, mouse retinoic acid receptor, Sp1, and AP-2 expression vectors are also ...
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Binding modes of thrombin binding aptamers investigated by simulations and experiments
... constant hydrodynamic radius. Given the energy of HD1-HD1’ pairing of -29.35 kcal.mol -1 (OligoAnalyzer IDT), our simulations are consistent with these estimates of HD1 binding to exosite 1,since all calculated ...
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Non-Binding Voluntary Agreements
... since it essentially means that the Legislator is able to extract the entire lobbying surplus from the two groups. 7 Conclusion We have developed a model of non-enforceable VAs under the threat of a legislative quota ...
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