J. Comput. Biol. - Biological network querying techniques: analysis and comparison.

Tópicos

{ gene(2352) biolog(1181) express(1162) }
{ search(2224) databas(1162) retriev(909) }
{ research(1085) discuss(1038) issu(1018) }
{ data(1714) softwar(1251) tool(1186) }
{ imag(1947) propos(1133) code(1026) }
{ take(945) account(800) differ(722) }
{ concept(1167) ontolog(924) domain(897) }
{ method(1557) propos(1049) approach(1037) }
{ data(3963) clinic(1234) research(1004) }
{ sequenc(1873) structur(1644) protein(1328) }
{ care(1570) inform(1187) nurs(1089) }
{ import(1318) role(1303) understand(862) }
{ bind(1733) structur(1185) ligand(1036) }
{ model(3480) simul(1196) paramet(876) }
{ state(1844) use(1261) util(961) }
{ research(1218) medic(880) student(794) }
{ data(2317) use(1299) case(1017) }
{ intervent(3218) particip(2042) group(1664) }
{ can(981) present(881) function(850) }
{ health(1844) social(1437) communiti(874) }
{ use(1733) differ(960) four(931) }
{ process(1125) use(805) approach(778) }
{ model(3404) distribut(989) bayesian(671) }
{ data(1737) use(1416) pattern(1282) }
{ inform(2794) health(2639) internet(1427) }
{ system(1976) rule(880) can(841) }
{ method(1219) similar(1157) match(930) }
{ featur(3375) classif(2383) classifi(1994) }
{ imag(2675) segment(2577) method(1081) }
{ assess(1506) score(1403) qualiti(1306) }
{ problem(2511) optim(1539) algorithm(950) }
{ algorithm(1844) comput(1787) effici(935) }
{ extract(1171) text(1153) clinic(932) }
{ method(984) reconstruct(947) comput(926) }
{ case(1353) use(1143) diagnosi(1136) }
{ howev(809) still(633) remain(590) }
{ perform(999) metric(946) measur(919) }
{ model(2341) predict(2261) use(1141) }
{ monitor(1329) mobil(1314) devic(1160) }
{ use(976) code(926) identifi(902) }
{ drug(1928) target(777) effect(648) }
{ activ(1452) weight(1219) physic(1104) }
{ can(774) often(719) complex(702) }
{ measur(2081) correl(1212) valu(896) }
{ imag(1057) registr(996) error(939) }
{ imag(2830) propos(1344) filter(1198) }
{ network(2748) neural(1063) input(814) }
{ patient(2315) diseas(1263) diabet(1191) }
{ studi(2440) review(1878) systemat(933) }
{ motion(1329) object(1292) video(1091) }
{ treatment(1704) effect(941) patient(846) }
{ surgeri(1148) surgic(1085) robot(1054) }
{ framework(1458) process(801) describ(734) }
{ error(1145) method(1030) estim(1020) }
{ chang(1828) time(1643) increas(1301) }
{ learn(2355) train(1041) set(1003) }
{ clinic(1479) use(1117) guidelin(835) }
{ design(1359) user(1324) use(1319) }
{ control(1307) perform(991) simul(935) }
{ model(2220) cell(1177) simul(1124) }
{ general(901) number(790) one(736) }
{ featur(1941) imag(1645) propos(1176) }
{ studi(1410) differ(1259) use(1210) }
{ risk(3053) factor(974) diseas(938) }
{ system(1050) medic(1026) inform(1018) }
{ visual(1396) interact(850) tool(830) }
{ compound(1573) activ(1297) structur(1058) }
{ perform(1367) use(1326) method(1137) }
{ studi(1119) effect(1106) posit(819) }
{ blood(1257) pressur(1144) flow(957) }
{ spatial(1525) area(1432) region(1030) }
{ record(1888) medic(1808) patient(1693) }
{ health(3367) inform(1360) care(1135) }
{ ehr(2073) health(1662) electron(1139) }
{ patient(2837) hospit(1953) medic(668) }
{ model(2656) set(1616) predict(1553) }
{ 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) }
{ sampl(1606) size(1419) use(1276) }
{ data(3008) multipl(1320) sourc(1022) }
{ first(2504) two(1366) second(1323) }
{ activ(1138) subject(705) human(624) }
{ time(1939) patient(1703) rate(768) }
{ patient(1821) servic(1111) care(1106) }
{ use(2086) technolog(871) perceiv(783) }
{ analysi(2126) use(1163) compon(1037) }
{ structur(1116) can(940) graph(676) }
{ high(1669) rate(1365) level(1280) }
{ cancer(2502) breast(956) screen(824) }
{ result(1111) use(1088) new(759) }
{ implement(1333) system(1263) develop(1122) }
{ survey(1388) particip(1329) question(1065) }
{ estim(2440) model(1874) function(577) }
{ decis(3086) make(1611) patient(1517) }
{ method(1969) cluster(1462) data(1082) }
{ method(2212) result(1239) propos(1039) }
{ detect(2391) sensit(1101) algorithm(908) }

Resumo

Research in systems biology has made available large amounts of data about interactions among cell building blocks (e.g., proteins, genes). To properly look up these data and mine useful information, the design and development of automatic tools has become crucial. These tools leverage Biological Networks as a formal model to encode molecular interactions. Biological networks can be fed as input to graph-based techniques useful to infer new information about cellular activity and evolutive processes of the species. In this context, a rather interesting family of techniques is that of network querying. Network querying tools search a whole biological network to identify conserved occurrences of a given query module for transferring biological knowledge. Indeed, inasmuch as the query network generally encodes a well-characterized functional module, its occurrences in the queried network suggest that the latter (and, as such, the corresponding organism) features the function encoded by the former. The aim of this paper is that of analyzing and comparing tools devised to query biological networks. This analysis is intended to help in understanding problems and research issues, state of the art and opportunities for researchers working in this area.

Resumo Limpo

research system biolog made avail larg amount data interact among cell build block eg protein gene proper look data mine use inform design develop automat tool becom crucial tool leverag biolog network formal model encod molecular interact biolog network can fed input graphbas techniqu use infer new inform cellular activ evolut process speci context rather interest famili techniqu network queri network queri tool search whole biolog network identifi conserv occurr given queri modul transfer biolog knowledg inde inasmuch queri network general encod wellcharacter function modul occurr queri network suggest latter correspond organ featur function encod former aim paper analyz compar tool devis queri biolog network analysi intend help understand problem research issu state art opportun research work area

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