Comput Biol Chem - Large-scale mining co-expressed genes in Arabidopsis anther: from pair to group.

Tópicos

{ gene(2352) biolog(1181) express(1162) }
{ network(2748) neural(1063) input(814) }
{ import(1318) role(1303) understand(862) }
{ intervent(3218) particip(2042) group(1664) }
{ method(2212) result(1239) propos(1039) }
{ data(3008) multipl(1320) sourc(1022) }
{ structur(1116) can(940) graph(676) }
{ survey(1388) particip(1329) question(1065) }
{ imag(2675) segment(2577) method(1081) }
{ studi(1410) differ(1259) use(1210) }
{ data(1737) use(1416) pattern(1282) }
{ system(1976) rule(880) can(841) }
{ studi(2440) review(1878) systemat(933) }
{ concept(1167) ontolog(924) domain(897) }
{ data(3963) clinic(1234) research(1004) }
{ first(2504) two(1366) second(1323) }
{ use(2086) technolog(871) perceiv(783) }
{ process(1125) use(805) approach(778) }
{ measur(2081) correl(1212) valu(896) }
{ patient(2315) diseas(1263) diabet(1191) }
{ take(945) account(800) differ(722) }
{ general(901) number(790) one(736) }
{ model(2656) set(1616) predict(1553) }
{ sampl(1606) size(1419) use(1276) }
{ time(1939) patient(1703) rate(768) }
{ high(1669) rate(1365) level(1280) }
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{ estim(2440) model(1874) function(577) }
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{ model(3404) distribut(989) bayesian(671) }
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{ imag(1057) registr(996) error(939) }
{ bind(1733) structur(1185) ligand(1036) }
{ sequenc(1873) structur(1644) protein(1328) }
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{ record(1888) medic(1808) patient(1693) }
{ health(3367) inform(1360) care(1135) }
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{ monitor(1329) mobil(1314) devic(1160) }
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{ state(1844) use(1261) util(961) }
{ research(1218) medic(880) student(794) }
{ patient(2837) hospit(1953) medic(668) }
{ data(2317) use(1299) case(1017) }
{ age(1611) year(1155) adult(843) }
{ medic(1828) order(1363) alert(1069) }
{ signal(2180) analysi(812) frequenc(800) }
{ cost(1906) reduc(1198) effect(832) }
{ group(2977) signific(1463) compar(1072) }
{ activ(1138) subject(705) human(624) }
{ patient(1821) servic(1111) care(1106) }
{ can(981) present(881) function(850) }
{ analysi(2126) use(1163) compon(1037) }
{ health(1844) social(1437) communiti(874) }
{ cancer(2502) breast(956) screen(824) }
{ use(976) code(926) identifi(902) }
{ use(1733) differ(960) four(931) }
{ result(1111) use(1088) new(759) }
{ implement(1333) system(1263) develop(1122) }
{ decis(3086) make(1611) patient(1517) }
{ activ(1452) weight(1219) physic(1104) }
{ detect(2391) sensit(1101) algorithm(908) }

Resumo

Research on gene co-expression not only plays an important role in understanding the complex regulatory relationships, but also contributes to our understanding of gene regulatory network. Beyond the co-expression knowledge between two genes, investigating the co-expression relationships among multiple target genes is more informative for understanding the basic working mechanisms in a cell. In this paper, all the Arabidopsis anther genes and every gene's potential co-expressed partners are collected by cross-database search. By combining simple pair gene co-expression networks, a complex Arabidopsis anther co-expression network is constructed. Maximum-clique algorithm is then applied to mine the groups reflecting co-expression relationships among multiple Arabidopsis anther genes that are represented by completely connected graphs. As a result, 254 Arabidopsis anther complete co-expression groups are obtained and our analysis shows that all the genes in the same group have high propensity to be functionally related and co-expressed together. We also demonstrate the efficacy of the proposed maximum-clique algorithm by comparing its results with the known Arabidopsis genome pathways, K-means clustering algorithm derived results and randomized data. It is expected that the 254 Arabidopsis anther complete co-expression groups generated in this paper can be a valuable knowledge source for further studies of molecular mechanisms of anther and its transcription regulations.

Resumo Limpo

research gene coexpress play import role understand complex regulatori relationship also contribut understand gene regulatori network beyond coexpress knowledg two gene investig coexpress relationship among multipl target gene inform understand basic work mechan cell paper arabidopsi anther gene everi gene potenti coexpress partner collect crossdatabas search combin simpl pair gene coexpress network complex arabidopsi anther coexpress network construct maximumcliqu algorithm appli mine group reflect coexpress relationship among multipl arabidopsi anther gene repres complet connect graph result arabidopsi anther complet coexpress group obtain analysi show gene group high propens function relat coexpress togeth also demonstr efficaci propos maximumcliqu algorithm compar result known arabidopsi genom pathway kmean cluster algorithm deriv result random data expect arabidopsi anther complet coexpress group generat paper can valuabl knowledg sourc studi molecular mechan anther transcript regul

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