[PDF] Top 20 A structural-based strategy for recognition of transcription factor binding sites.
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A structural-based strategy for recognition of transcription factor binding sites.
... promise of applying knowledge-based energy functions to the prediction of TFBS sites, we were motivated to explore other modifications that could improve the performance of vcFIRE in ... See full document
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A systems biology approach to transcription factor binding site prediction.
... proportion of non- target and indirect targets, which substantially dilute ...properties of the data to identify genes that are more likely to be direct transcriptional targets of the ...theorem ... See full document
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Comprehensive human transcription factor binding site map for combinatory binding motifs discovery.
... respective binding sites, we uncover the syntax of the crosstalk among them on the genomic scale, estimating the combinatorial binding patterns (CBPs) of the ...‘‘motifs of ... See full document
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A linear model for transcription factor binding affinity prediction in protein binding microarrays.
... TF binding specificity based on PBM ...DREAM5 transcription factor/DNA motif recognition challenge, our model can also be applied in less artificial ...genomic binding ... See full document
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Identifying functional transcription factor binding sites in yeast by considering their positional preference in the promoters.
... Transcription factor binding site (TFBS) identification plays an important role in deciphering gene regulatory ...knowledge of TFBSs, one can understand molecular mechanisms of gene ... See full document
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Co-localization of the oncogenic transcription factor MYCN and the DNA methyl binding protein MeCP2 at genomic sites in neuroblastoma.
... expression of JUNB. Our own ChIP-chip analysis of JUNB in the Kelly cell line reveals several putative overlapping MYCN and MeCP2 binding sites around the promoter region of JUNB which ... See full document
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Interactions between the R2R3-MYB transcription factor, AtMYB61, and target DNA binding sites.
... model of AtMYB61, the molecular interactions shared between the binding sites of AtMYB61 to its targets supported in vitro binding data (Figure ...modelling of AtMYB61 with ... See full document
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Probing the informational and regulatory plasticity of a transcription factor DNA-binding domain.
... Sequences of viable MarA binding domain variants are shown in Table 1 and sequence logos generated from these variants are shown in Figure ...Each binding domain is referenced by residues 42, 45 and ... See full document
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Systematic analysis and prediction of pupylation sites in prokaryotic proteins.
... analysis of ubiquitin-like protein conjugated lysine in ...region of the ubiquitin-like protein conjugated lysine residues is in directly contact with the proteasome accessory factor A (PafA) ... See full document
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High-precision, in vitro validation of the sequestration mechanism for generating ultrasensitive dose-response curves in regulatory networks.
... versatility of biomolecular recognition have motivated decades of research in the development of sensors and other biotechnologies based on this effect [36], the hyperbolic –and thus ... See full document
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Differential Nucleosome Occupancies across Oct4-Sox2 Binding Sites in Murine Embryonic Stem Cells.
... Part of the dif- ficulty in obtaining nucleosome occupancies from more complex organisms, either in vivo or in vitro, is due to the large size of the genome and consequently lower sequencing coverage per ... See full document
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DNA-MATRIX: a tool for constructing transcription factor binding sites Weight matrix
... one of the major challenges in molecular biology is to understand the mechanisms of gene regulation at the level of ...area of research is very encouraging. Performance comparison of ... See full document
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Prediction of nucleosome positioning based on transcription factor binding sites.
... The binding sites of most TFs are short (5–20 bp) [44] degenerate sequences that occur frequently in the genome by chance [41], which causes many sequences with similarity to known TFBSs that are not ... See full document
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Transcription factor binding sites prediction based on modified nucleosomes.
... ratio of nucleosome containing top 8 marks and three repressive histone modifications (as a control) were calculated at each position around binding sites of Sp1 (see ...binding ... See full document
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Systematic functional study of cytochrome P450 2D6 promoter polymorphisms in the Chinese Han population.
... each of penicillin and streptomycin in a humidified atmosphere containing 5% ...g of each CYP2D6 construct containing firefly luciferase reporter gene was transfected into the HepG 2 cells using Transfectin ... See full document
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Novel positive regulatory role for the SPL6 transcription factor in the N TIR-NB-LRR receptor-mediated plant innate immunity.
... association of NbSPL6 with N in ...extension of p50-Ob by six amino acids at the N-terminus produced nuclear and cytoplasmic localization, which is identical to that seen with tCFP-p50-U1 (Figure ...levels ... See full document
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Differences in transcriptional activity of human papillomavirus type 6 molecular variants in recurrent respiratory papillomatosis
... sequence of 13 laryngeal biopsies from RRP patients, and describe for the first time 5 novel HPV-6 LCR variants: HPV-6a-var1, -6a-var2, -6vc-var1, -6vc-var2 and ...distribution of HPV-6 variants: HPV-6vc ... See full document
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Extensive divergence of transcription factor binding in Drosophila embryos with highly conserved gene expression.
... size of 180 ...parts of BCD, HB, GT or KR, and prepared as described above: antibodies affinity-purified against the ...parts of the D.melanogaster epitopes (for BCD, HB and KR). Both sets of ... See full document
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Interaction of the transactivation domain of B-Myb with the TAZ2 domain of the coactivator p300: molecular features and properties of the complex.
... results of a typical pull-down assay conducted at a 1:1 molar ratio of GST-B-Myb TAD:p300 TAZ2, which demonstrates that the p300 TAZ2 domain binds to the immobilized GST-B-Myb fusion ...amount of ... See full document
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J. Braz. Chem. Soc. vol.21 número10
... consisted of the two LC 10 AD VP pumps with one of the pumps having a valve FCV-10AL for selecting solvent, a UV-Vis detector (SPD-M10AV VP), an autosampler equipment with a 500 L loop (SIL 10 AD ... See full document
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