Comput Methods Programs Biomed - Pinda: a web service for detection and analysis of intraspecies gene duplication events.

Tópicos

{ sequenc(1873) structur(1644) protein(1328) }
{ gene(2352) biolog(1181) express(1162) }
{ use(976) code(926) identifi(902) }
{ analysi(2126) use(1163) compon(1037) }
{ structur(1116) can(940) graph(676) }
{ implement(1333) system(1263) develop(1122) }
{ detect(2391) sensit(1101) algorithm(908) }
{ general(901) number(790) one(736) }
{ system(1050) medic(1026) inform(1018) }
{ model(2656) set(1616) predict(1553) }
{ data(3008) multipl(1320) sourc(1022) }
{ network(2748) neural(1063) input(814) }
{ take(945) account(800) differ(722) }
{ design(1359) user(1324) use(1319) }
{ studi(1410) differ(1259) use(1210) }
{ medic(1828) order(1363) alert(1069) }
{ system(1976) rule(880) can(841) }
{ imag(1057) registr(996) error(939) }
{ imag(2675) segment(2577) method(1081) }
{ extract(1171) text(1153) clinic(932) }
{ data(1714) softwar(1251) tool(1186) }
{ model(2220) cell(1177) simul(1124) }
{ search(2224) databas(1162) retriev(909) }
{ howev(809) still(633) remain(590) }
{ data(3963) clinic(1234) research(1004) }
{ perform(999) metric(946) measur(919) }
{ monitor(1329) mobil(1314) devic(1160) }
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{ patient(1821) servic(1111) care(1106) }
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{ blood(1257) pressur(1144) flow(957) }
{ spatial(1525) area(1432) region(1030) }
{ record(1888) medic(1808) patient(1693) }
{ health(3367) inform(1360) care(1135) }
{ model(3480) simul(1196) paramet(876) }
{ ehr(2073) health(1662) electron(1139) }
{ state(1844) use(1261) util(961) }
{ research(1218) medic(880) student(794) }
{ patient(2837) hospit(1953) medic(668) }
{ age(1611) year(1155) adult(843) }
{ signal(2180) analysi(812) frequenc(800) }
{ cost(1906) reduc(1198) effect(832) }
{ group(2977) signific(1463) compar(1072) }
{ sampl(1606) size(1419) use(1276) }
{ first(2504) two(1366) second(1323) }
{ intervent(3218) particip(2042) group(1664) }
{ activ(1138) subject(705) human(624) }
{ time(1939) patient(1703) rate(768) }
{ can(981) present(881) function(850) }
{ health(1844) social(1437) communiti(874) }
{ high(1669) rate(1365) level(1280) }
{ cancer(2502) breast(956) screen(824) }
{ use(1733) differ(960) four(931) }
{ drug(1928) target(777) effect(648) }
{ result(1111) use(1088) new(759) }
{ survey(1388) particip(1329) question(1065) }
{ decis(3086) make(1611) patient(1517) }
{ process(1125) use(805) approach(778) }
{ activ(1452) weight(1219) physic(1104) }
{ method(1969) cluster(1462) data(1082) }
{ method(2212) result(1239) propos(1039) }

Resumo

We present Pinda, a Web service for the detection and analysis of possible duplications of a given protein or DNA sequence within a source species. Pinda fully automates the whole gene duplication detection procedure, from performing the initial similarity searches, to generating the multiple sequence alignments and the corresponding phylogenetic trees, to bootstrapping the trees and producing a Z-score-based list of duplication candidates for the input sequence. Pinda has been cross-validated using an extensive set of known and bibliographically characterized duplication events. The service facilitates the automatic and dependable identification of gene duplication events, using some of the most successful bioinformatics software to perform an extensive analysis protocol. Pinda will prove of use for the analysis of newly discovered genes and proteins, thus also assisting the study of recently sequenced genomes. The service's location is http://orion.mbg.duth.gr/Pinda. The source code is freely available via https://github.com/dgkontopoulos/Pinda/.

Resumo Limpo

present pinda web servic detect analysi possibl duplic given protein dna sequenc within sourc speci pinda fulli autom whole gene duplic detect procedur perform initi similar search generat multipl sequenc align correspond phylogenet tree bootstrap tree produc zscorebas list duplic candid input sequenc pinda crossvalid use extens set known bibliograph character duplic event servic facilit automat depend identif gene duplic event use success bioinformat softwar perform extens analysi protocol pinda will prove use analysi newli discov gene protein thus also assist studi recent sequenc genom servic locat httporionmbgduthgrpinda sourc code freeli avail via httpsgithubcomdgkontopoulospinda

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