V. Paar (Univ. Zagreb) - Key-string segmentation algorithm and
higher-order repeat 16mer (54 copies) in human alpha satellite DNA in chromosome
7
- Accession Number
- 657ZU-0003
- Document Delivery
- 657ZU: Document Delivery available
- Authors
- Rosandic
M. Paar
V. Basar
I.
- Author e-mail Address
- paar@hazu.hr
- Title
- Key-string segmentation algorithm and higher-order repeat 16mer (54 copies)
in human alpha satellite DNA in chromosome 7
- Source
- Journal of Theoretical Biology. 221(1):29-37, 2003 Mar 7.
- Abbreviated Source
- J. Theor. Biol. 221(1):29-37, 2003 Mar 7.
- Copyright Publisher
- ACADEMIC PRESS LTD ELSEVIER SCIENCE LTD, 24-28 OVAL RD, LONDON NW1 7DX,
ENGLAND. URL: http://www.apnet.com
- ISSN
- 0022-5193
- KeyWords Plus
- Human
x-chromosome. Range
fractal correlations. Repetitive
dna. Genomic
organization. Biological
sequences. 1/f-alpha
spectrum. Evolution.
Periodicities.
Eukaryotes.
Centromere.
- Abstract
- A new key-string segmentation algorithm for identification of alpha
satellite DNAs and higher-order repeat (HOR) units was introduced and
exemplified. Starting with an initial key string, we determine the dominant
key string and HOR. Our key-string algorithm was used to scan the recent
GenBank data for human alpha satellite DNA sequence AC017075.8 (193277bp)
from the centromeric region of chromosome 7. The sequence was
computationally segmented into one HOR domain (super-repeat domain) and two
non-HOR domains. Dominant key-string GTTTCT provided segmentation in terms
of alpha monomers. The HOR is tandemly repeated in 54 copies in the super-repeat
(HOR) domain. Five insertions and three deletions in the HOR structure
associated with a dominant key string were identified. Concensus HOR was
constructed. Divergence of individual HOR copies from concensus amounts to
0.7% on the average, while divergence between 16 monomer variants within
each HOR is on the average 20%. In the front and back domain, 199 monomer
variants were identified that are not organized in HOR and diverge by
20-40%. (C) 2002 Elsevier Science Ltd. All rights reserved. [References: 43]
- Language
- English
- Publication Type
- Article
- Subset
- Current Contents(R)/Life Sciences.
- CC Categories
- Multidisciplinary in Current Contents(R)/Life Sciences.
- Entry Week
- 2003 week 16
- Reprint Address
- Reprint available from: Paar V. Univ Zagreb, Fac Sci, Bijenicka 32,
Zagreb 41000, Croatia.
- Institution
- Reprint available from:
Paar V
Univ Zagreb, Fac Sci
Bijenicka 32
Zagreb 41000
Croatia
Univ Zagreb, Fac Sci
Zagreb 41000
Croatia
Univ Zagreb, Hosp Rebro, Dept Internal Med
Zagreb 41000
Croatia