Comput Biol Chem - Analysis of correlation structures in the Synechocystis PCC6803 genome.

Tópicos

{ perform(999) metric(946) measur(919) }
{ method(984) reconstruct(947) comput(926) }
{ sequenc(1873) structur(1644) protein(1328) }
{ chang(1828) time(1643) increas(1301) }
{ structur(1116) can(940) graph(676) }
{ assess(1506) score(1403) qualiti(1306) }
{ howev(809) still(633) remain(590) }
{ first(2504) two(1366) second(1323) }
{ monitor(1329) mobil(1314) devic(1160) }
{ can(981) present(881) function(850) }
{ imag(1947) propos(1133) code(1026) }
{ concept(1167) ontolog(924) domain(897) }
{ gene(2352) biolog(1181) express(1162) }
{ network(2748) neural(1063) input(814) }
{ imag(2675) segment(2577) method(1081) }
{ model(2220) cell(1177) simul(1124) }
{ studi(1410) differ(1259) use(1210) }
{ import(1318) role(1303) understand(862) }
{ studi(1119) effect(1106) posit(819) }
{ survey(1388) particip(1329) question(1065) }
{ bind(1733) structur(1185) ligand(1036) }
{ patient(2315) diseas(1263) diabet(1191) }
{ framework(1458) process(801) describ(734) }
{ problem(2511) optim(1539) algorithm(950) }
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{ group(2977) signific(1463) compar(1072) }
{ sampl(1606) size(1419) use(1276) }
{ data(3008) multipl(1320) sourc(1022) }
{ intervent(3218) particip(2042) group(1664) }
{ activ(1138) subject(705) human(624) }
{ time(1939) patient(1703) rate(768) }
{ patient(1821) servic(1111) care(1106) }
{ use(2086) technolog(871) perceiv(783) }
{ health(1844) social(1437) communiti(874) }
{ cancer(2502) breast(956) screen(824) }
{ use(976) code(926) identifi(902) }
{ use(1733) differ(960) four(931) }
{ drug(1928) target(777) effect(648) }
{ result(1111) use(1088) new(759) }
{ implement(1333) system(1263) develop(1122) }
{ estim(2440) model(1874) function(577) }
{ decis(3086) make(1611) patient(1517) }
{ process(1125) use(805) approach(778) }
{ activ(1452) weight(1219) physic(1104) }
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{ method(2212) result(1239) propos(1039) }
{ detect(2391) sensit(1101) algorithm(908) }

Resumo

Transfer of nucleotide strings in the Synechocystis sp. PCC6803 genome is investigated to exhibit periodic and non-periodic correlation structures by using the recurrence plot method and the phase space reconstruction technique. The periodic correlation structures are generated by periodic transfer of several substrings in long periodic or non-periodic nucleotide strings embedded in the coding regions of genes. The non-periodic correlation structures are generated by non-periodic transfer of several substrings covering or overlapping with the coding regions of genes. In the periodic and non-periodic transfer, some gaps divide the long nucleotide strings into the substrings and prevent their global transfer. Most of the gaps are either the replacement of one base or the insertion/reduction of one base. In the reconstructed phase space, the points generated from two or three steps for the continuous iterative transfer via the second maximal distance can be fitted by two lines. It partly reveals an intrinsic dynamics in the transfer of nucleotide strings. Due to the comparison of the relative positions and lengths, the substrings concerned with the non-periodic correlation structures are almost identical to the mobile elements annotated in the genome. The mobile elements are thus endowed with the basic results on the correlation structures.

Resumo Limpo

transfer nucleotid string synechocysti sp pcc genom investig exhibit period nonperiod correl structur use recurr plot method phase space reconstruct techniqu period correl structur generat period transfer sever substr long period nonperiod nucleotid string embed code region gene nonperiod correl structur generat nonperiod transfer sever substr cover overlap code region gene period nonperiod transfer gap divid long nucleotid string substr prevent global transfer gap either replac one base insertionreduct one base reconstruct phase space point generat two three step continu iter transfer via second maxim distanc can fit two line part reveal intrins dynam transfer nucleotid string due comparison relat posit length substr concern nonperiod correl structur almost ident mobil element annot genom mobil element thus endow basic result correl structur

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