From Genome to Protein Function
A Combined Approach for Genome Wide Protein Function Annotation/Prediction
... scale genome sequencing technologies are uncovering an increasing amount of new genes and proteins, which remain ...for protein function prediction are low throughput by nature and thus can’t be used ...
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A Combined Approach for Genome Wide Protein Function Annotation/Prediction
... scale genome sequencing technologies are uncovering an increasing amount of new genes and proteins, which remain ...for protein function prediction are low throughput by nature and thus can’t be used ...
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A combined approach for genome wide protein function annotation/prediction
... works from various species and by utilizing orthology relationships, conserved modules and local PPI neigh- ...data from various data- bases, and detects maximal conserved and connected sub-graphs in the ...
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Inference of protein function and protein linkages in Mycobacterium tuberculosis based on prokaryotic genome organization: a combined computational approach
... hypothetical protein' Rv1879 by both the Operon Method and the Rosetta Stone method, possibly indi- cating a functional relationship between these two ...fused protein, as seen in Figure ...this ...
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FunPred-1: Protein function prediction from a protein interaction network using neighborhood analysis
... 16. Asthana, S., King, O.D., Gibbons, F.D. and Roth, F.P. Predicting protein complex membership using probabilistic network reliability. Genome Res. 14 (2004) 1170–1175. 17. Krogan, N. J., Cagney, G., Yu, ...
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Protein Function Prediction from Protein Interaction Network Using Clustering and Sequence of Amino Acid
... of protein interaction maps in order to predict protein ...for genome scale analysis of molecular interaction networks has made possible new approaches to inferring protein ...a ...
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Protein Function Assignment through Mining Cross-Species Protein-Protein Interactions
... found from other data sources or biological experiments, confirming the utility of this ...on protein-protein interaction data and common domain interaction patterns is reliable for large-scale ...
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From genome to function: the Arabidopsis aquaporins
... Studying genome sequences yields unique and useful infor- mation about unstudied and understudied ...location from some case studies, our ability to extrapolate from gene sequence to functional ...
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A systematic genome-wide analysis of zebrafish protein-coding gene function
... Refer to Web version on PubMed Central for supplementary material. Acknowledgments We thank Pete Ellis, Eleanor Markham Henk van Roekel, Pim Toonen, Jose van de Belt, Josine Mudde and Sara Widaa for technical assistance, ...
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Domain-mediated protein interaction prediction: From genome to network
... discover protein pairs that recognize each ...(molecular function and biological process), sequence signatures, literature references, and known experimental interactions can be obtained from diverse ...
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Exploring the function of protein kinases in schistosomes: perspectives from the laboratory and from comparative genomics
... Eukaryotic protein kinases are well conserved through evolution. The genome of Schistosoma mansoni, which causes intestinal schistosomiasis, encodes over 250 putative protein kinases with all of the ...
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Three-Dimensional Genome Organization and Function in Drosophila
... came from the study of polytene chromosomes of the salivary gland ...melanogaster genome in 102 main cytological divisions, further divided into six subsections each, and even further in variable numbers of ...
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Investigating the role of protein-protein and protein-DNA interactions in the function of Isl1
... both protein-protein and protein- DNA interactions are important in examining the function of ...Data from Chapter 5 suggests that Isl1 may not be able to function as a ...
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Application of Bioinformatics to Protein Domain, Protein Network, and Whole Genome Studies.
... 42 major receptors allow for other taxis behavior in E. coli, including osmotaxis, thermotaxis, and pH taxis [144, 248, 249]. These additional properties likely make tar and tsr more indispensable than tap and trg. The ...
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Avian reovirus L2 genome segment sequences and predicted structure/function of the encoded RNA dependent RNA polymerase protein
... the protein exposed to the core interior and in the N-terminal and C-terminal bracelet domains, whereas most identical amino acids and conservative substitutions were located within canonical fingers, palm, and ...
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Automated Genome-Wide Protein Domain Exploration
... (G). The DNA is made of AGCT and in RNA uracil (U) takes place of thymine hence RNA is made of AGCU. The process of transferring genetic information from DNA to RNA is called transcription. RNA polymerases are the ...
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From genome to function by studying eQTLs
... will need to perform fewer statistical tests. While such pathway-based eQTL methods have already been proposed [72] , few studies have used them so far in a human setting [73] . Finally, another important issue is to ...
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Insights about genome function from spatial organization of the genome
... Keywords: Genome architecture, Chromosome conformation capture (3C), Hi-C, Topologically associated domains (TAD), Chromatin looping, Histone modifications, Transcription Background Recent advances in the field of ...
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mlt Mutation in the polyomavirus genome impairing a function of the middle T protein.
... FIG. Comparison of the AvaI-HindIII sequence of A2, P16, and P155. Nucleotide changes in the P16 and P155 sequences are shown on bottom lines. Amino acids in the middle and large T antig[r] ...
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Prediction of Protein Function and Functional Sites From Protein Sequences
... of protein sequences generated by the ...query protein: the standard Viterbi algorithm [82], the N-best algorithm [83], and the posterior decoding method using a dynamic programming ...a protein is a ...
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