Protein-DNA binding specificity predictions with structural models
about
Computational redesign of endonuclease DNA binding and cleavage specificityAmyloid beta-protein monomer folding: free-energy surfaces reveal alloform-specific differencesUsing sequence-specific chemical and structural properties of DNA to predict transcription factor binding sitesEnhancements to the Rosetta Energy Function Enable Improved Identification of Small Molecules that Inhibit Protein-Protein InteractionsGeneral transfer matrix formalism to calculate DNA-protein-drug binding in gene regulation: application to OR operator of phageConnecting protein structure with predictions of regulatory sites.Inference of expanded Lrp-like feast/famine transcription factor targets in a non-model organism using protein structure-based predictionPrediction of mono- and di-nucleotide-specific DNA-binding sites in proteins using neural networksExtensive protein and DNA backbone sampling improves structure-based specificity prediction for C2H2 zinc fingers.Determining the role of missense mutations in the POU domain of HNF1A that reduce the DNA-binding affinity: A computational approach.Predicting DNA-binding locations and orientation on proteins using knowledge-based learning of geometric properties.FootprintDB: Analysis of Plant Cis-Regulatory Elements, Transcription Factors, and Binding Interfaces.Protein-DNA docking with a coarse-grained force field.Improved predictions of transcription factor binding sites using physicochemical features of DNA.nuScore: a web-interface for nucleosome positioning predictions.Discrimination between thermodynamic models of cis-regulation using transcription factor occupancy data.Altered target site specificity variants of the I-PpoI His-Cys box homing endonuclease.Identification of DNA-binding protein target sequences by physical effective energy functions: free energy analysis of lambda repressor-DNA complexes.Limited functional conservation of a global regulator among related bacterial genera: Lrp in Escherichia, Proteus and VibrioA novel Bayesian DNA motif comparison method for clustering and retrievalEvolutionary conservation of DNA-contact residues in DNA-binding domains.Prediction of TF target sites based on atomistic models of protein-DNA complexes.From nonspecific DNA-protein encounter complexes to the prediction of DNA-protein interactions.Motif-directed flexible backbone design of functional interactions.Creating PWMs of transcription factors using 3D structure-based computation of protein-DNA free binding energies.An effective approach for generating a three-Cys2His2 zinc-finger-DNA complex model by dockingOptimization of minimum set of protein-DNA interactions: a quasi exact solution with minimum over-fittingPredicting transcription factor binding motifs from DNA-binding domains, chromatin accessibility and gene expression data.Local gene regulation details a recognition code within the LacI transcriptional factor family.An efficient algorithm for improving structure-based prediction of transcription factor binding sitesThree enhancements to the inference of statistical protein-DNA potentials.Design and directed evolution of a dideoxy purine nucleoside phosphorylase.Absence of a simple code: how transcription factors read the genomePredicting target DNA sequences of DNA-binding proteins based on unbound structures.Improved modeling of side-chain--base interactions and plasticity in protein--DNA interface designUsing protein design algorithms to understand the molecular basis of disease caused by protein-DNA interactions: the Pax6 example.Structure-based modeling of protein: DNA specificity.The underlying molecular and network level mechanisms in the evolution of robustness in gene regulatory networks.A structural-based strategy for recognition of transcription factor binding sites.Prediction of DNA binding motifs from 3D models of transcription factors; identifying TLX3 regulated genes.
P2860
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P2860
Protein-DNA binding specificity predictions with structural models
description
2005 nî lūn-bûn
@nan
2005 թուականին հրատարակուած գիտական յօդուած
@hyw
2005 թվականին հրատարակված գիտական հոդված
@hy
2005年の論文
@ja
2005年論文
@yue
2005年論文
@zh-hant
2005年論文
@zh-hk
2005年論文
@zh-mo
2005年論文
@zh-tw
2005年论文
@wuu
name
Protein-DNA binding specificity predictions with structural models
@ast
Protein-DNA binding specificity predictions with structural models
@en
Protein-DNA binding specificity predictions with structural models
@nl
type
label
Protein-DNA binding specificity predictions with structural models
@ast
Protein-DNA binding specificity predictions with structural models
@en
Protein-DNA binding specificity predictions with structural models
@nl
prefLabel
Protein-DNA binding specificity predictions with structural models
@ast
Protein-DNA binding specificity predictions with structural models
@en
Protein-DNA binding specificity predictions with structural models
@nl
P2860
P3181
P356
P1476
Protein-DNA binding specificity predictions with structural models
@en
P2093
Eric D Siggia
James J Havranek
P2860
P304
P3181
P356
10.1093/NAR/GKI875
P407
P577
2005-01-01T00:00:00Z