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279736 occurrences (No.90 in the rank) during 5 years in the PubMed. [no cache] 500 found

44) Species- and isochore-specific variations of the matrices and of the positioning motifs are demonstrated.

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PMID:24266748 DOI:10.1080/07391102.2013.855143

2015 Journal of biomolecular structure & dynamics

* Visible periodicity of strong nucleosome DNA sequences.

- Fifteen years ago, Lowary and Widom assembled nucleosomes on synthetic random sequence DNA molecules, selected the strongest nucleosomes and discovered that the TA dinucleotides in these strong nucleosome sequences often appear at 10-11 bases from one another or at distances which are multiples of this period. We repeated this experiment computationally, on large ensembles of natural genomic sequences, by selecting the strongest nucleosomes--i.e. those with such distances between like-named dinucleotides, multiples of 10.4 bases, the structural and sequence period of nucleosome DNA. The analysis confirmed the periodicity of TA dinucleotides in the strong nucleosomes, and revealed as well other periodic sequence elements, notably classical AA and TT dinucleotides. The matrices of DNA bendability and their simple linear forms--nucleosome positioning motifs--are calculated from the strong nucleosome DNA sequences. The motifs are in full accord with nucleosome positioning sequences derived earlier, thus confirming that the new technique, indeed, detects strong nucleosomes. Species- and isochore-specific variations of the matrices and of the positioning motifs are demonstrated. The strong nucleosome DNA sequences manifest the highest hitherto nucleosome positioning sequence signals, showing the dinucleotide periodicities in directly observable rather than in hidden form.

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(1)15 to	(19)4 types	(37)2 attention	(55)2 lineages
(2)9 sequence	(20)3 characteristics	(38)2 barriers	(56)2 measures
(3)7 and	(21)3 features	(39)2 computational	(57)2 miRNAs
(4)7 cell	(22)3 job	(40)2 constitutive	(58)2 molecular
(5)7 variations	(23)3 target	(41)2 criteria	(59)2 neuronal
(6)6 cognitive	(24)3 tendon	(42)2 deficits	(60)2 or
(7)6 genes	(25)3 therapy	(43)2 differences	(61)2 parameters
(8)6 surface	(26)3 type	(44)2 divergence	(62)2 phytotoxicity
(9)5 antibodies	(27)3 variation	(45)2 effect	(63)2 polymerase
(10)5 for	(28)2 null	(46)2 elements	(64)2 primers
(11)5 phobias	(29)2 ECM	(47)2 ethnocultural	(65)2 protein
(12)4 brain	(30)2 IgG	(48)2 extracellular	(66)2 proteins
(13)4 effects	(31)2 PCR	(49)2 fault	(67)2 recommendations
(14)4 growth	(32)2 age-dependent	(50)2 function	(68)2 requirements
(15)4 incidence	(33)2 analysis	(51)2 genetic	(69)2 self-efficacy
(16)4 manner	(34)2 antigen	(52)2 genomic	(70)2 targeted
(17)4 motor	(35)2 antigens	(53)2 information	(71)2 tests
(18)4 needs	(36)2 approach	(54)2 inhibitors

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--- WordNet output for specific --- =>特有の, 特効薬, 明確な, 特定の, 種の, はっきりした Overview of noun specific The noun specific has 2 senses (no senses from tagged texts) 1. particular, specific -- (a fact about some part (as opposed to general); "he always reasons from the particular to the general") 2. specific -- (a medicine that has a mitigating effect on a specific disease; "quinine is a specific for malaria") Overview of adj specific The adj specific has 4 senses (first 2 from tagged texts) 1. (39) specific -- ((sometimes followed by `to') applying to or characterized by or distinguishing something particular or special or unique; "rules with specific application"; "demands specific to the job"; "a specific and detailed account of the accident") 2. (5) specific -- (stated explicitly or in detail; "needed a specific amount") 3. specific -- (relating to or distinguishing or constituting a taxonomic species; "specific characters") 4. specific -- (being or affecting a disease produced by a particular microorganism or condition; used also of stains or dyes used in making microscope slides; "quinine is highly specific for malaria"; "a specific remedy"; "a specific stain is one having a specific affinity for particular structural elements") --- WordNet end ---