Comparative Bioinformatic Analysis of RNA Partner Sequences
Bioinformatic Analysis of Retroelement- Associated Sequences in Human and Mouse Promoters
... for RNA polymerase III containing conserved sequence motif called B-box which can bind basal transcription complex ...annotated sequences of the Database of mammalian transcription start sites ...
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Comparative Analysis of Hepatitis B Virus Polymerase Sequences Required for Viral RNA Binding, RNA Packaging, and Protein Priming
... parative analysis of HP and H ε requirements for protein-RNA interactions, pgRNA packaging, and protein priming, all in the same host cells and using the same HP and Hε ...HP sequences and motifs ...
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Bioinformatic and Physical Characterizations of Genome-Scale Ordered RNA Structure in Mammalian RNA Viruses
... the analysis of thermodynamic RNA secondary structure predictions, we previously obtained evidence for evolutionarily conserved large-scale ordering of RNA virus genomes ...Evans, RNA ...
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A comparative study of RNA-seq analysis strategies
... The simplest approach is to assume the transcripts in a sample are a subset of the transcripts listed in a curated database, such as Ensembl [4]: reads are aligned to reference genome or tran- scriptome sequences, ...
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A comparative study of RNA-seq analysis strategies.
... transcript sequences by assembly of short reads or ...in RNA samples using RNA-seq [ 2 , 3 ...scriptome sequences, and statistical models are used to estimate expression or test for ...
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Bioinformatic and functional analysis of RNA secondary structure elements among different genera of human and animal caliciviruses
... developed RNA structure prediction methods to identify and characterize regions of secondary structure formation in each genus of the ...single sequences used for previous RNA structure predictions ...
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RNA-Binding Domain Proteins in Kinetoplastids: a Comparative Analysis
... low-complexity sequences, such as glutamine-rich or glycine-rich ...U-rich RNA (9), and UBP1 and UBP2 have been implicated in posttranscriptional control of gene expres- sion in both ...promote RNA ...
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Comparative Sequence Analysis and Patterns of Covariation in RNA Secondary Structures
... plotted. the initial identification step, we chose parameter values that would keep computation time reasonable by lim- iting the total number of potential helices. In practice, Drosophila bcd mRNA, and eukaryotic SSU ...
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Bioinformatic methods for the analysis and comparison of metagenomes and metatranscriptomes
... the analysis of metatranscrip- tome ...further analysis, all sequences corresponding to any functional or taxonomic result can be downloaded from ...non-coding RNA in the sample influences the ...
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The Interactions of the Largest Subunit of RNA Polymerase II with Other Cellular Proteins: a Bioinformatic Approach
... Fig. 1: The interaction of the largest subunit of RNAPII (Rpb1) with other cellular proteins in yeast as revealed by bioinformatic analysis. stimulatory effect on transcription, whereas the whole Mediator ...
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Evolutionary analysis of protein structural families to assist comparative modelling of genome sequences
... widespread RNA-binding motif with similarity to a I number of other RNA binding proteins and a particularly strong similarity with ribosomal protein S3, part of the ribosome which translates ...
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Bioinformatic analysis of beta carbonic anhydrase sequences from protozoans and metazoans
... Phylogenetic analysis The results of the phylogenetic analysis of 75 β-CAs in metazoan and protozoan species are shown in Figure 1. A β-CA sequence from the Pelosinus fermentans bacterium was used as an ...
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Bioinformatic analysis of beta carbonic anhydrase sequences from protozoans and metazoans
... Phylogenetic analysis The results of the phylogenetic analysis of 75 β-CAs in metazoan and protozoan species are shown in Figure 1. A β-CA sequence from the Pelosinus fermentans bacterium was used as an ...
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A comparative analysis of thermophilic and psychrophilic metallopeptidases: involvement of bioinformatic approach
... detailed comparative analyses of both thermophilic and psychrophilic metallopeptidases were ...The comparative analysis of both thermophilic and psychrophilic metallopeptidases was performed by ...
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Design and Implementation of Bioinformatic Tools to Analyze Protein Sequences
... They play crucial roles in leukocyte trafficking, migration, immunological synapse formation, costimulation, and phagocytosis. The studies of integrin molecule structure and function helps in better understanding the ...
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PARSES: A Pipeline for Analysis of RNA-Sequencing Exogenous Sequences
... signals. RNA was generated from the cells using Qiagen kits and preps were performed by an expert RNA ...the RNA revealed high expression of mature miRNAs ...
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A telescope for the RNA universe : novel bioinformatic approaches to analyze RNA sequencing data
... motif analysis of potential recursive splicing events provides evidence that these events are genuine, consid- ering the canonical splice motifs and the occurrence of the events across multiple cell ...as ...
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Day2 : Single cell RNA sequencing: The bioinformatic downstreamanalysis
... After having the principal components, to compute the percentage of variance (information) accounted for by each component, we divide the eigenvalue of each component by the sum of eig[r] ...
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EpiAlign: an alignment-based bioinformatic tool for comparing chromatin state sequences.
... Two other computational methods, EpiCompare (47) and ChromDiff (48), have been developed to compare chro- matin states between samples. They test for the difference of a single chromatin state’s frequency in a genomic ...
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Bioinformatic methods for eukaryotic RNA-Seq-based promoter identification
... obtain sequences short enough to be ...the sequences are fixed on the flow cell an amplification process is repeated several times to generate a dense forest of clonal sequences in near ...
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