On the organization of human T-cell receptor loci: log-periodic distribution of T-cell receptor gene segments

Journal of the Royal Society, Interface
Amir A ToorMasoud H Manjili

Abstract

The human T-cell repertoire is complex and is generated by the rearrangement of variable (V), diversity (D) and joining (J) segments on the T-cell receptor (TCR) loci. The T-cell repertoire demonstrates self-similarity in terms clonal frequencies when defined by V, D and J gene segment usage; therefore to determine whether the structural ordering of these gene segments on the TCR loci contributes to the observed clonal frequencies, the TCR loci were examined for self-similarity and periodicity in terms of gene segment organization. Logarithmic transformation of numeric sequence order demonstrated that the V and J gene segments for both T-cell receptor α (TRA) and β (TRB) loci are arranged in a self-similar manner when the spacing between the adjacent segments was considered as a function of the size of the neighbouring gene segment, with an average fractal dimension of approximately 1.5. Accounting for the gene segments occurring on helical DNA molecules with a logarithmic distribution, sine and cosine functions of the log-transformed angular coordinates of the start and stop nucleotides of successive TCR gene segments showed an ordered progression from the 5' to the 3' end of the locus, supporting a log-periodic organization. ...Continue Reading

References

Mar 23, 2002·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·S Gluzman, D Sornette
Apr 19, 2003·The Journal of Immunology : Official Journal of the American Association of Immunologists·Yuri N NaumovJack Gorski
Aug 25, 2004·Physical Review Letters·Zhengqing OuyangZhen-Su She
Sep 5, 2006·The Journal of Immunology : Official Journal of the American Association of Immunologists·Aryeh Warmflash, Aaron R Dinner
Nov 17, 2007·Nature Reviews. Immunology·Nathan J Felix, Paul M Allen
Nov 23, 2007·Nature·Adam G W MatthewsMarjorie A Oettinger
Dec 17, 2008·Journal of Molecular Biology·Ho-Ryun Chung, Martin Vingron
Jun 23, 2009·Genome Research·J Douglas FreemanRobert A Holt
Oct 7, 2009·Proceedings of the National Academy of Sciences of the United States of America·Yu Nee LeeDavid Jung
Feb 23, 2010·PLoS Computational Biology·Florence ThuderozEvelyne Jouvin-Marche
Sep 3, 2010·Science Translational Medicine·Harlan S RobinsEdus H Warren
Sep 21, 2010·IEEE Transactions on Medical Imaging·M Z Che AzeminJ J Wang
Jan 1, 2010·Frontiers in Physiology·Bruce J West
Sep 29, 2011·Journal of Immunological Methods·Harlan RobinsKaren Cerosaletti
Oct 18, 2011·BMC Genomics·Pedro A MorenoFelipe García
Oct 19, 2011·Biology of Blood and Marrow Transplantation : Journal of the American Society for Blood and Marrow Transplantation·Amir A ToorMasoud H Manjili
Feb 22, 2012·Gene·Guenter Albrecht-Buehler
May 16, 2012·Frontiers in Physiology·Lazaros K GallosHernán A Makse
Sep 18, 2012·Proceedings of the National Academy of Sciences of the United States of America·Wilfred NdifonNir Friedman
Jan 15, 2013·Biology of Blood and Marrow Transplantation : Journal of the American Society for Blood and Marrow Transplantation·Jeremy MeierAmir A Toor
May 7, 2013·The Journal of Immunology : Official Journal of the American Association of Immunologists·Han-Yu Shih, Michael S Krangel
Oct 22, 2013·Current Opinion in Immunology·Harlan Robins
Oct 3, 2014·PloS One·Olesya V BolkhovskayaMikhail V Ivanchenko
Dec 5, 2014·The Journal of Immunology : Official Journal of the American Association of Immunologists·Abani Kanta NaikMichael S Krangel
Dec 19, 2014·Frontiers in Immunology·Amir A ToorMichael C Neale
Apr 8, 2015·Biology of Blood and Marrow Transplantation : Journal of the American Society for Blood and Marrow Transplantation·Amir A ToorMichael C Neale
Jul 8, 2015·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Daniel J LaydonBecca Asquith

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Citations

Jan 25, 2019·Biology of Blood and Marrow Transplantation : Journal of the American Society for Blood and Marrow Transplantation·Jeremy A MeierAmir A Toor

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