Sequence Motifs
PFP RFSM: Protein fold prediction by using random forests and sequence motifs
... mary sequence as ...on sequence motifs and those features are firstly employed in protein fold ...suggest sequence motifs are effective in classification and analysis of protein ...
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Phosphatidylinositol transfer proteins: sequence motifs in structural and evolutionary analyses
... these sequence motifs, and not of the proteins as a ...protein sequence are difficult to utilize in any phylogenetic analysis; they are purely derived characters that are phylogenetically un- ...
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Categorization of species based on their microRNAs employing sequence motifs, information theoretic sequence feature extraction, and k mers
... Parameterization of pre-miRNAs is important for ap- plying machine learning algorithms, and numerous fea- tures have been proposed [18]. Short sequences (k-mers) have been used early on for the machine learning-based ab ...
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Host sequence motifs shared by HIV predict response to antiretroviral therapy
... linear motifs on the HIV genome. These motifs can be grouped into three basic types: eukaryotic linear motifs (ELMs), nucleotide-based motifs and a priori-based resistance ...nucleotide ...
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Statistical Methods for Identifying Sequence Motifs Affecting Point Mutations
... the sequence motifs that affect point mutations? How large are the motifs? Are they strand symmetric? And, do they vary between samples? We present new log-linear models that allow explicit ...
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Functional Analysis of Sequence Motifs Involved in the Polyadenylation of Trichomonas vaginalis mRNAs
... RNA sequence from the pcat mutant plasmids in panel B, showing the actual positions where mRNAs were found to be ...coding sequence is in lowercase ...bold motifs depicted in panel ...UAAA ...
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Molecular definition and sequence motifs of the 52 kD component of human SS A/Ro autoantigen
... DNA/RNA. Sequence homology detected between the 52-kD protein and human ret transforming protein, and mouse T cell gene expression down-regulatory protein rpt-1, may provide leads to the functional role of the ...
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Discovering Sequence Motifs of Different Patterns Parallely using DNA Operations
... of sequence similarity of various kinds, in the primary structure of related proteins or ...large sequence or more number of sequences, patterns with misplaced gaps, patterns with rigid continuous sequences ...
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Identifying DNA Sequence Motifs of Pdx-1 and NeuroD1 Transcription Factors
... common motifs statistically overrepresented in the given set of sequences compared to a background sequences (usually promoters of all genes of an ...optimal motifs are likely to be ...spurious ...
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Sequence Bundles: a novel method for visualising, discovering and exploring sequence motifs
... separate Sequence Logo figures, and we found that users frequently misjudged letters ’ height and relative ...the Sequence Bundles method enables an easy and direct comparison of both groups, whilst also ...
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Functional motifs in Escherichia coli NC101
... specific sequence motifs and many of them are drug ...know motifs and their location in ...functional motifs in E. coli NC101 contig 1. The whole genomic sequence of Escherichia coli ...
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Multiple protein-binding sites in an intracisternal A particle long terminal repeat.
... Three of the DNase I footprints include a sequence with homology to the simian virus 40 core enhancer and sequence motifs that closely resemble the binding sites for transcription factor[r] ...
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A novel role of Krüppel-like factor 8 as an apoptosis repressor in hepatocellular carcinoma
... Although most of the transcription factors are com- monly recognized as direct transcriptional activators, mounting evidence has indicated the key role of tran- scription factors in inducing epigenetic changes in ...
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Pacing across the membrane: the novel PACE family of efflux pumps is widespread in Gram negative pathogens
... of sequence motifs between the N- and C-terminal halves of PACE proteins suggests that these proteins may have evolved by a duplication event of an ancestral single BTP domain ...acid sequence ...
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Multiple Pathways for Steel Regulation Suggested by Genomic and Sequence Analysis of the Murine Steel Gene
... Comparison of the EcoD sequence to the Transcription Factor Site database (7.3 release; see GHOSH 1991) revealed other sequence motifs further upstream of the trans[r] ...
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The cohesin complex: sequence homologies, interaction networks and shared motifs
... common motifs. We identified a large number of protein sequence motifs that were shared by pairs of proteins in the network, and which could poten- tially represent shared binding ...
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Helicase-primase complex of herpes simplex virus type 1: a mutation in the UL52 subunit abolishes primase activity.
... Examination of the amino acid sequence of UL5 strongly suggests that it is the helicase of the complex, as it shares conserved sequence motifs with other known helicases 25, 29 and mutat[r] ...
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Polypeptide p41 of a Norwalk-Like Virus Is a Nucleic Acid-Independent Nucleoside Triphosphatase
... shares sequence motifs with protein 2C of picornaviruses and superfamily 3 ...Protein sequence comparison between the consensus sequences of NLV p41 and enterovirus protein 2C revealed regions of ...
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Different Evolutionary Strategies To Conserve Chromatin Boundary Function in the Bithorax Complex
... this sequence divergence, boundary function and LBC binding to the dHS1 region are preserved, though the number and arrangement of LBC recognition elements is all three species differs from that found in ...
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Evidence That the Large Noncoding Sequence Is the Main Control Region of Maternally and Paternally Transmitted Mitochondrial Genomes of the Marine Mussel (Mytilus spp.)
... urchin sequence used is from ...human sequence used is the revised Cambridge reference sequence, GenBank accession ...the sequence match is accidental, as obtained from the online program PRDF ...
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