Alignment free comparison: similarity distribution between the DNA primary sequences based on the shortest absent word

DOI10.1016/j.jtbi.2011.11.021zbMath1336.92030OpenAlexW1994149784WikidataQ51483049 ScholiaQ51483049MaRDI QIDQ285165

Hegui Zhu, Lianping Yang, Xiang-De Zhang

Publication date: 19 May 2016

Published in: Journal of Theoretical Biology (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.1016/j.jtbi.2011.11.021

zbMATH Keywords

lexicographic orderEutherian ordershemoglobin sequencereversal complementary strand

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Protein sequences, DNA sequences (92D20)

Related Items (4)

Comparison of genomic data via statistical distribution ⋮ Extraction of high quality \(k\)-words for alignment-free sequence comparison ⋮ Protein Sequence Comparison Method Based on 3-ary Huffman Coding ⋮ Alignment free comparison: \(k\) word voting model and its applications

Uses Software

• Memtype-2L
• ProtIdent
• GPCR-2L
• SubChlo
• iLoc-Euk
• Signal-3L

Cites Work

• Predicting protein fold pattern with functional domain and sequential evolution information
• Protein functional class prediction using global encoding of amino acid sequence
• SubChlo: predicting protein subchloroplast locations with pseudo-amino acid composition and the evidence-theoretic \(K\)-nearest neighbor (ET-KNN) algorithm
• Some remarks on protein attribute prediction and pseudo amino acid composition
• Comparison of alignment free string distances for complete genome phylogeny
• Statistical Measures of DNA Sequence Dissimilarity under Markov Chain Models of Base Composition
• A measure of the similarity of sets of sequences not requiring sequence alignment.

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