Distributions of Dimeric Tandem Repeats in Non-coding and Coding DNA Sequences

Dokholyan, Nikolay V.; Buldyrev, Sergey V.; Havlin, Shlomo; Stanley, H. Eugene

doi:10.1006/jtbi.1999.1052

Cited by 38 publications

(27 citation statements)

References 43 publications

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“…The maximum length of LCRs (∼ 300 bp) is notably longer than that of either non-coding or coding microsatellites (b ∼ 200 bp). While our conclusion that coding microsatellites obey power-law dynamics is at odds with previous results (Dokholyan et al, 2000), we attribute this difference to stricter mismatch tolerance in their procedure, their limited number of observations at longer lengths, and similarity between exponential and power-law distributions (Supplementary Section 2).…”

Section: Lcrs Microsatellites and Intrinsically Unstructured Regionscontrasting

confidence: 78%

“…LCRs are distinct from simple-repeat microsatellites (Goldstein and Schlötterer, 1999) but share several characteristics with them including a power-law relationship between length and abundance, response to mutational bias and, in coding microsatellites, constraints of biochemistry (Dokholyan et al, 2000;Li et al, 2002). LCRs are also distinct from, but related to, intrinsically unstructured regions (IURs) (Dunker et al, 2002), which are composed of a reduced set of disorder-promoting amino acids that tolerate substitutions at higher rates than their surrounding ordered counterparts and often contain microsatellites that may evolve by replication slippage and unequal crossover recombination (Tompa, 2003).…”

Section: Lcrs Microsatellites and Intrinsically Unstructured Regionsmentioning

confidence: 99%

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On the abundance, amino acid composition, and evolutionary dynamics of low-complexity regions in proteins

DePristo

Zilversmit

Hartl

2006

Gene

110

112

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Section: Lcrs Microsatellites and Intrinsically Unstructured Regionscontrasting

confidence: 78%

Section: Lcrs Microsatellites and Intrinsically Unstructured Regionsmentioning

confidence: 99%

On the abundance, amino acid composition, and evolutionary dynamics of low-complexity regions in proteins

DePristo

Zilversmit

Hartl

2006

Gene

110

112

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“…Repeat expansion in coding regions can alter protein function which can also result in new function 36 . It is perhaps due to these reasons that presence of SSRs in exons compared with introns is low in the present study, which corroborates studies on different genes and genomes 22,28,62,72,75 . Some trinucleotide repeats may add new coding regions and affect size or add new functions to proteins 76 .…”

Section: Repeats In Exons/intronssupporting

confidence: 80%

“…Few repeats in coding regions are perhaps to avoid possibility of frame-shift or other mutations that may affect gene expression. Repeats in exons are possibly those that have functional roles 22,23,32,[71][72][73][74] . Repeat expansion in coding regions can alter protein function which can also result in new function 36 .…”

Section: Repeats In Exons/intronsmentioning

confidence: 99%

Few Simple Sequence Repeats in Human Hair

2017

JCBSC

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Abstract:Keratin genes are subgroup of intermediate filament (IF) genes. Keratins expressed in hair are called "hair keratins". Comparison of keratin gene sequences and structural organization has been done earlier but no study has been undertaken that compares human hair keratin genes with orthologues in chimp, orangutan, macaque and platypus, with specific references to simple sequence repeats (SSRs) or microsatellites. This study seeks presence of SSRs in human hair keratin genes and compares their positions in orthologue genes. Although the structural organization of keratin genes is largely conserved, as reported in other studies; some human keratin genes show differences in the number of exons and the lengths of exons/introns, when compared with the orthologues. The present study shows few SSRs in human hair keratin genes, where only one repeat is found in exon of Type I keratin gene KRT31, while additional repeats are present in introns. Some repeats are longer in the human genes whereas some indicate reduction in length compared with orthologues. Many repeats are present in regions that are known for intronic variations. This study revisits the comparisons of structural organization of human hair keratin genes and compares them with the orthologues. The SSRs found here could be useful for monitoring variations in human hair keratin genes that may happen due to hypermutable nature of SSRs.

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“…Physicists have studied for decades the complex dynamics of time series embedded in fractal support spaces [152][153][154][155][156]. In the analysis of time series, self-similar patterns can constitute a hierarchy of temporal and spatial scales.…”

Section: Complexitymentioning

confidence: 99%

Biological physics in México

Hernández‐Lemus

2011

J Biol Phys

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Biological and physical sciences possess a long-standing tradition of cooperativity as separate but related subfields of science. For some time, this cooperativity has been limited by their obvious differences in methods and views. Biological physics has recently experienced a kind of revival (or better a rebirth) due to the growth of molecular research on animate matter. New avenues for research have been opened for both theoretical and experimental physicists. Nevertheless, in order to better travel for such paths, the contemporary biological physicist should be armed with a set of specialized tools and methods but also with a new attitude toward multidisciplinarity. In this review article, we intend to somehow summarize what has been done in the past (in particular, as an example we will take a closer look at the Mexican case), to show some examples of fruitful investigations in the biological physics area and also to set a proposal of new curricula for physics students and professionals interested in applying their science to get a better understanding of the physical basis of biological function.

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Distributions of Dimeric Tandem Repeats in Non-coding and Coding DNA Sequences

Cited by 38 publications

References 43 publications

On the abundance, amino acid composition, and evolutionary dynamics of low-complexity regions in proteins

On the abundance, amino acid composition, and evolutionary dynamics of low-complexity regions in proteins

Few Simple Sequence Repeats in Human Hair

Biological physics in México

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