Dissimilar Symmetric Word Pairs in the Human Genome

Ana Helena Tavares; Jakob Raymaekers; Peter J. Rousseeuw; Raquel M. Silva; Carlos A. C. Bastos; Armando Pinho; Paula Brito; Vera Afreixo

doi:10.1007/978-3-319-60816-7_30

Dissimilar Symmetric Word Pairs in the Human Genome

Ana Helena Tavares^*, Jakob Raymaekers, Peter J. Rousseeuw, Raquel M. Silva, Carlos A. C. Bastos, Armando Pinho, Paula Brito, Vera Afreixo

^*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceeding › Conference article in proceeding › Academic › peer-review

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Abstract

In this work we explore the dissimilarity between symmetric word pairs, by comparing the inter-word distance distribution of a word to that of its reversed complement. We propose a new measure of dissimilarity between such distributions. Since symmetric pairs with different patterns could point to evolutionary features, we search for the pairs with the most dissimilar behaviour. We focus our study on the complete human genome and its repeat-masked version.

Original language	English
Title of host publication	11TH INTERNATIONAL CONFERENCE ON PRACTICAL APPLICATIONS OF COMPUTATIONAL BIOLOGY & BIOINFORMATICS
Editors	F FdezRiverola, MS Mohamad, M Rocha, JF DePaz, T Pinto
Publisher	Springer International Publishing AG
Pages	248-256
Number of pages	9
ISBN (Electronic)	978-3-319-60816-7
ISBN (Print)	978-3-319-60815-0
DOIs	https://doi.org/10.1007/978-3-319-60816-7_30
Publication status	Published - 2017
Externally published	Yes
Event	11th International Conference on Practical Applications of Computational Biology and Bioinformatics (PACBB) - Porto, Portugal Duration: 21 Jun 2017 → 23 Jun 2017

Publication series

Series	Advances in Intelligent Systems and Computing
Volume	616
ISSN	2194-5357

Conference

Conference	11th International Conference on Practical Applications of Computational Biology and Bioinformatics (PACBB)
Country/Territory	Portugal
City	Porto
Period	21/06/17 → 23/06/17

Keywords

Inter-word distance
Reversed complements
Dissimilarity measure
Human genome

Access to Document

10.1007/978-3-319-60816-7_30

Full TextFinal published version, 279 KBLicence: Taverne

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Tavares, A. H., Raymaekers, J., Rousseeuw, P. J., Silva, R. M., Bastos, C. A. C., Pinho, A., Brito, P., & Afreixo, V. (2017). Dissimilar Symmetric Word Pairs in the Human Genome. In F. FdezRiverola, MS. Mohamad, M. Rocha, JF. DePaz, & T. Pinto (Eds.), 11TH INTERNATIONAL CONFERENCE ON PRACTICAL APPLICATIONS OF COMPUTATIONAL BIOLOGY & BIOINFORMATICS (pp. 248-256). Springer International Publishing AG. https://doi.org/10.1007/978-3-319-60816-7_30

Tavares, Ana Helena ; Raymaekers, Jakob ; Rousseeuw, Peter J. et al. / Dissimilar Symmetric Word Pairs in the Human Genome. 11TH INTERNATIONAL CONFERENCE ON PRACTICAL APPLICATIONS OF COMPUTATIONAL BIOLOGY & BIOINFORMATICS. editor / F FdezRiverola ; MS Mohamad ; M Rocha ; JF DePaz ; T Pinto. Springer International Publishing AG, 2017. pp. 248-256 (Advances in Intelligent Systems and Computing, Vol. 616).

@inproceedings{0efd1c1c08884966810238670e7e325c,

title = "Dissimilar Symmetric Word Pairs in the Human Genome",

abstract = "In this work we explore the dissimilarity between symmetric word pairs, by comparing the inter-word distance distribution of a word to that of its reversed complement. We propose a new measure of dissimilarity between such distributions. Since symmetric pairs with different patterns could point to evolutionary features, we search for the pairs with the most dissimilar behaviour. We focus our study on the complete human genome and its repeat-masked version.",

keywords = "Inter-word distance, Reversed complements, Dissimilarity measure, Human genome",

author = "Tavares, {Ana Helena} and Jakob Raymaekers and Rousseeuw, {Peter J.} and Silva, {Raquel M.} and Bastos, {Carlos A. C.} and Armando Pinho and Paula Brito and Vera Afreixo",

year = "2017",

doi = "10.1007/978-3-319-60816-7_30",

language = "English",

isbn = "978-3-319-60815-0",

series = "Advances in Intelligent Systems and Computing",

publisher = "Springer International Publishing AG",

pages = "248--256",

editor = "F FdezRiverola and MS Mohamad and M Rocha and JF DePaz and T Pinto",

booktitle = "11TH INTERNATIONAL CONFERENCE ON PRACTICAL APPLICATIONS OF COMPUTATIONAL BIOLOGY & BIOINFORMATICS",

note = "11th International Conference on Practical Applications of Computational Biology and Bioinformatics (PACBB) ; Conference date: 21-06-2017 Through 23-06-2017",

}

Tavares, AH, Raymaekers, J, Rousseeuw, PJ, Silva, RM, Bastos, CAC, Pinho, A, Brito, P & Afreixo, V 2017, Dissimilar Symmetric Word Pairs in the Human Genome. in F FdezRiverola, MS Mohamad, M Rocha, JF DePaz & T Pinto (eds), 11TH INTERNATIONAL CONFERENCE ON PRACTICAL APPLICATIONS OF COMPUTATIONAL BIOLOGY & BIOINFORMATICS. Springer International Publishing AG, Advances in Intelligent Systems and Computing, vol. 616, pp. 248-256, 11th International Conference on Practical Applications of Computational Biology and Bioinformatics (PACBB), Porto, Portugal, 21/06/17. https://doi.org/10.1007/978-3-319-60816-7_30

Dissimilar Symmetric Word Pairs in the Human Genome. / Tavares, Ana Helena; Raymaekers, Jakob; Rousseeuw, Peter J. et al.
11TH INTERNATIONAL CONFERENCE ON PRACTICAL APPLICATIONS OF COMPUTATIONAL BIOLOGY & BIOINFORMATICS. ed. / F FdezRiverola; MS Mohamad; M Rocha; JF DePaz; T Pinto. Springer International Publishing AG, 2017. p. 248-256 (Advances in Intelligent Systems and Computing, Vol. 616).

Research output: Chapter in Book/Report/Conference proceeding › Conference article in proceeding › Academic › peer-review

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T1 - Dissimilar Symmetric Word Pairs in the Human Genome

AU - Tavares, Ana Helena

AU - Raymaekers, Jakob

AU - Rousseeuw, Peter J.

AU - Silva, Raquel M.

AU - Bastos, Carlos A. C.

AU - Pinho, Armando

AU - Brito, Paula

AU - Afreixo, Vera

PY - 2017

Y1 - 2017

N2 - In this work we explore the dissimilarity between symmetric word pairs, by comparing the inter-word distance distribution of a word to that of its reversed complement. We propose a new measure of dissimilarity between such distributions. Since symmetric pairs with different patterns could point to evolutionary features, we search for the pairs with the most dissimilar behaviour. We focus our study on the complete human genome and its repeat-masked version.

AB - In this work we explore the dissimilarity between symmetric word pairs, by comparing the inter-word distance distribution of a word to that of its reversed complement. We propose a new measure of dissimilarity between such distributions. Since symmetric pairs with different patterns could point to evolutionary features, we search for the pairs with the most dissimilar behaviour. We focus our study on the complete human genome and its repeat-masked version.

KW - Inter-word distance

KW - Reversed complements

KW - Dissimilarity measure

KW - Human genome

U2 - 10.1007/978-3-319-60816-7_30

DO - 10.1007/978-3-319-60816-7_30

M3 - Conference article in proceeding

SN - 978-3-319-60815-0

T3 - Advances in Intelligent Systems and Computing

SP - 248

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BT - 11TH INTERNATIONAL CONFERENCE ON PRACTICAL APPLICATIONS OF COMPUTATIONAL BIOLOGY & BIOINFORMATICS

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A2 - Mohamad, MS

A2 - Rocha, M

A2 - DePaz, JF

A2 - Pinto, T

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ER -

Tavares AH, Raymaekers J, Rousseeuw PJ, Silva RM, Bastos CAC, Pinho A et al. Dissimilar Symmetric Word Pairs in the Human Genome. In FdezRiverola F, Mohamad MS, Rocha M, DePaz JF, Pinto T, editors, 11TH INTERNATIONAL CONFERENCE ON PRACTICAL APPLICATIONS OF COMPUTATIONAL BIOLOGY & BIOINFORMATICS. Springer International Publishing AG. 2017. p. 248-256. (Advances in Intelligent Systems and Computing, Vol. 616). doi: 10.1007/978-3-319-60816-7_30

Dissimilar Symmetric Word Pairs in the Human Genome

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Keywords

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