Search Results - "Rodrigues, João M. O. S."

DNA word analysis based on the distribution of the distances between symmetric words by Tavares, Ana H. M. P., Pinho, Armando J., Silva, Raquel M., Rodrigues, João M. O. S., Bastos, Carlos A. C., Ferreira, Paulo J. S. G., Afreixo, Vera

“…We address the problem of discovering pairs of symmetric genomic words (i.e., words and the corresponding reversed complements) occurring at distances that are…”
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Distribution of Distances Between Symmetric Words in the Human Genome: Analysis of Regular Peaks by Bastos, Carlos A. C., Afreixo, Vera, Rodrigues, João M. O. S., Pinho, Armando J., Silva, Raquel M.

“…Finding DNA sites with high potential for the formation of hairpin/cruciform structures is an important task. Previous works studied the distances between…”
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Minimal absent words in prokaryotic and eukaryotic genomes by Garcia, Sara P, Pinho, Armando J, Rodrigues, João M O S, Bastos, Carlos A C, Ferreira, Paulo J S G

“…Minimal absent words have been computed in genomes of organisms from all domains of life. Here, we explore different sets of minimal absent words in the…”
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Concentration of inverted repeats along human DNA by Bastos, Carlos A. C., Afreixo, Vera, Rodrigues, João M. O. S., Pinho, Armando J.

“…This work aims to describe the observed enrichment of inverted repeats in the human genome; and to identify and describe, with detailed length profiles, the…”
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The exceptional genomic word symmetry along DNA sequences by Afreixo, Vera, Rodrigues, João M O S, Bastos, Carlos A C, Silva, Raquel M

“…The second Chargaff's parity rule and its extensions are recognized as universal phenomena in DNA sequences. However, parity of the frequencies of reverse…”
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Analysis of single-strand exceptional word symmetry in the human genome: new measures by Afreixo, Vera, Rodrigues, João M O S, Bastos, Carlos A C

“…Some previous studies suggest the extension of Chargaff's second rule (the phenomenon of symmetry in a single DNA strand) to long DNA words. However, in random…”
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Exceptional single strand DNA word symmetry: analysis of evolutionary potentialities by Afreixo, Vera, Rodrigues, João M. O. S., Bastos, Carlos A. C.

“…Some previous studies point to the extension of Chargaff’s second rule (the phenomenon of symmetry) to words of large length. However, in random sequences…”
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Exceptional single strand DNA word symmetry: analysis of evolutionary potentialities by Afreixo, Vera, Rodrigues, João M. O. S., Bastos, Carlos A. C.

“…Some previous studies point to the extension of Chargaff’s second rule (the phenomenon of symmetry) to words of large length. However, in random sequences…”
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Inter-dinucleotide distances in the human genome: an analysis of the whole-genome and protein-coding distributions by Bastos, Carlos A. C., Afreixo, Vera, Pinho, Armando J., Garcia, Sara P., Rodrigues, João M. O. S., Ferreira, Paulo J. S. G.

“…We study the inter-dinucleotide distance distributions in the human genome, both in the whole-genome and protein-coding regions. The inter-dinucleotide…”
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The breakdown of the word symmetry in the human genome by Afreixo, Vera, Bastos, Carlos A.C., Garcia, Sara P., Rodrigues, João M.O.S., Pinho, Armando J., Ferreira, Paulo J.S.G.

“…Previous studies have suggested that Chargaff's second rule may hold for relatively long words (above 10nucleotides), but this has not been conclusively shown…”
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On finding minimal absent words by Pinho, Armando J, Ferreira, Paulo J S G, Garcia, Sara P, Rodrigues, João M O S

“…The problem of finding the shortest absent words in DNA data has been recently addressed, and algorithms for its solution have been described. It has been…”
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XS: a FASTQ read simulator by Pratas, Diogo, Pinho, Armando J, Rodrigues, João M O S

“…The emerging next-generation sequencing (NGS) is bringing, besides the natural huge amounts of data, an avalanche of new specialized tools (for analysis,…”
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Exceptional Symmetry by Genomic Word: A Statistical Analysis by Afreixo, Vera, Rodrigues, João M. O. S., Bastos, Carlos A. C., Tavares, Ana H. M. P., Silva, Raquel M.

“…Single-strand DNA symmetry is pointed as a universal law observed in the genomes from all living organisms. It is a somewhat broadly defined concept, which has…”
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Inter-dinucleotide distances in the human genome: an analysis of the whole-genome and protein-coding distributions by Bastos, Carlos A. C., Afreixo, Vera, Pinho, Armando J., Garcia, Sara P., Rodrigues, João M. O. S., Ferreira, Paulo J. S. G.

“…We study the inter-dinucleotide distance distributions in the human genome, both in the whole-genome and protein-coding regions. The inter-dinucleotide…”
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Exceptional Symmetry by Genomic Word by Afreixo, Vera, João M O S Rodrigues, Bastos, Carlos A C, Ana H M P Tavares, Silva, Raquel M

“…Single-strand DNA symmetry is pointed as a universal law observed in the genomes from all living organisms. It is a somewhat broadly defined concept, which has…”
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A Genomic Distance for Assembly Comparison Based on Compressed Maximal Exact Matches by Garcia, S. P., Rodrigues, J. M. O. S., Santos, S., Pratas, D., Afreixo, V., Bastos, C. A. C., Ferreira, P. J. S. G., Pinho, A. J.

“…Genome assemblies are typically compared with respect to their contiguity, coverage, and accuracy. We propose a genome-wide, alignment-free genomic distance…”
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