Background: Nucleosomes, the basic units of eukaryotic chromatin, which consist of approximately 147 base pairs (bp) of DNA wrapping around an octamer comprised of eight histones were revealed in transcription regulat...
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Background: Nucleosomes, the basic units of eukaryotic chromatin, which consist of approximately 147 base pairs (bp) of DNA wrapping around an octamer comprised of eight histones were revealed in transcription regulation, DNA replication, DNA repair, and so on, by blocking DNA sites where proteins *** genes, which constitute 3% of human genome, differ from intron-containing genes in evolution and *** that many researchers have focused on the mystery of genes, the nucleosome organization of intronless genes hasn't been involved.
Motivation: The high redundancy of and high degree of cross-talk between biological pathways hint that a sub-pathway may respond more effectively or sensitively than the whole ***, few current pathway enrichment analy...
Motivation: The high redundancy of and high degree of cross-talk between biological pathways hint that a sub-pathway may respond more effectively or sensitively than the whole ***, few current pathway enrichment analysis methods account for the sub-pathways or structures of the tested *** present a sub-pathway-based enrichment approach for identifying a drug response principal network, which takes into consideration the quantitative structures of the pathways.
Motivation: Structure-based computational protein design is an important topic in protein *** the assumption of a rigid backbone and a finite set of discrete conformations of side-chains, various methods have been pro...
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Motivation: Structure-based computational protein design is an important topic in protein *** the assumption of a rigid backbone and a finite set of discrete conformations of side-chains, various methods have been proposed to address this problem.A popular method is to combine the dead-end elimination (DEE) and A* tree search algorithms, which provably finds the Global Minimum Energy Conformation (GMEC) solution.
Background: ***, disabled copy of functional gene, plays a subtle role in gene expression and genome *** first step in deciphering RNA-level regulation of pseudogenes is to understand their transcriptional *** far, th...
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Background: ***, disabled copy of functional gene, plays a subtle role in gene expression and genome *** first step in deciphering RNA-level regulation of pseudogenes is to understand their transcriptional *** far, there has been no report on possible roles of nucleosome organization in pseudogene transcription.
Background: Over last few decades, DNA sequencing plays an increasingly essential part in computational biology, comparative genomics, population genetics or even biology researches in ***, there is considerable ongoi...
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Background: Over last few decades, DNA sequencing plays an increasingly essential part in computational biology, comparative genomics, population genetics or even biology researches in ***, there is considerable ongoing effort getting DNA sequencing devices running more rapidly and *** the other hand, improving accuracy of next generation sequencers reduces necessities for resequencing, which lowers sequencing costs as well[1].
Background: Genomic imprinting is a complex genetic and epigenetic phenomenon that plays a crucial role in mammalian development and *** imprinted genes have been identified widely by experimental strategies or predic...
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Background: Genomic imprinting is a complex genetic and epigenetic phenomenon that plays a crucial role in mammalian development and *** imprinted genes have been identified widely by experimental strategies or predicted using computational *** information for these genes would be necessary for the identification of novel imprinted genes and the analysis of their regulatory mechanisms and functions.
Background: RNA-seq is made possible by the latest NGS technology and is most powerful method to analysis gene ***-seq used the count of reads falling onto a particular gene as an index of gene *** these values are ac...
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Background: RNA-seq is made possible by the latest NGS technology and is most powerful method to analysis gene ***-seq used the count of reads falling onto a particular gene as an index of gene *** these values are actual counts, there are great potentials to combine various datasets for analysis of gene expression among different clinical conditions.
Background: The geometry features of a protein surface plays key role in protein-protein *** descriptors or methods have been developed to identify convex and concave regions in proteins, such as protrusion index, sur...
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Background: The geometry features of a protein surface plays key role in protein-protein *** descriptors or methods have been developed to identify convex and concave regions in proteins, such as protrusion index, surface roughness, FADE, CX and ***, these methods are either coarse descriptors or involve intensive *** by the CX and VisGrid algorithm, an improved surface structural parameter called the convex-and-concave index(CCI) was developed to identify convex and concave regions on protein surfaces.
Background: Protein-ligand interactions play key roles in biological *** binding is one of the important aspects of protein function and thus the prediction provides a clue for understanding biological function of ***...
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Background: Protein-ligand interactions play key roles in biological *** binding is one of the important aspects of protein function and thus the prediction provides a clue for understanding biological function of *** ligand prediction is also very helpful for drug design and examining potential drug side-effects.
Background: Leukocyte β2 integrins of LFA-1, Mac-1, and αxβ2 are constituted with the same β2 subunit and highly homologous α subunits *** mediate leukocyte-endothelial cell adhesion in inflammation by binding of...
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Background: Leukocyte β2 integrins of LFA-1, Mac-1, and αxβ2 are constituted with the same β2 subunit and highly homologous α subunits *** mediate leukocyte-endothelial cell adhesion in inflammation by binding of their Ⅰ domains presenting on the top of each α subunit to the common ligand of *** three members involve in distinct stages of inflammation cascade even they have similar structures and the same *** distinct functions implicate structural difference, while the corresponding structural profile remains unclear.
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