Brief. Bioinformatics - Translational research platforms integrating clinical and omics data: a review of publicly available solutions.

Tópicos

{ health(1844) social(1437) communiti(874) }
{ concept(1167) ontolog(924) domain(897) }
{ data(3963) clinic(1234) research(1004) }
{ system(1050) medic(1026) inform(1018) }
{ data(1714) softwar(1251) tool(1186) }
{ visual(1396) interact(850) tool(830) }
{ extract(1171) text(1153) clinic(932) }
{ implement(1333) system(1263) develop(1122) }
{ method(1219) similar(1157) match(930) }
{ health(3367) inform(1360) care(1135) }
{ model(2656) set(1616) predict(1553) }
{ gene(2352) biolog(1181) express(1162) }
{ surgeri(1148) surgic(1085) robot(1054) }
{ featur(1941) imag(1645) propos(1176) }
{ model(3404) distribut(989) bayesian(671) }
{ can(774) often(719) complex(702) }
{ take(945) account(800) differ(722) }
{ motion(1329) object(1292) video(1091) }
{ chang(1828) time(1643) increas(1301) }
{ perform(1367) use(1326) method(1137) }
{ imag(1947) propos(1133) code(1026) }
{ measur(2081) correl(1212) valu(896) }
{ imag(1057) registr(996) error(939) }
{ patient(2315) diseas(1263) diabet(1191) }
{ studi(2440) review(1878) systemat(933) }
{ framework(1458) process(801) describ(734) }
{ problem(2511) optim(1539) algorithm(950) }
{ algorithm(1844) comput(1787) effici(935) }
{ care(1570) inform(1187) nurs(1089) }
{ general(901) number(790) one(736) }
{ method(984) reconstruct(947) comput(926) }
{ search(2224) databas(1162) retriev(909) }
{ howev(809) still(633) remain(590) }
{ studi(1410) differ(1259) use(1210) }
{ studi(1119) effect(1106) posit(819) }
{ record(1888) medic(1808) patient(1693) }
{ state(1844) use(1261) util(961) }
{ medic(1828) order(1363) alert(1069) }
{ signal(2180) analysi(812) frequenc(800) }
{ group(2977) signific(1463) compar(1072) }
{ can(981) present(881) function(850) }
{ cancer(2502) breast(956) screen(824) }
{ use(976) code(926) identifi(902) }
{ estim(2440) model(1874) function(577) }
{ process(1125) use(805) approach(778) }
{ method(1969) cluster(1462) data(1082) }
{ data(1737) use(1416) pattern(1282) }
{ inform(2794) health(2639) internet(1427) }
{ system(1976) rule(880) can(841) }
{ bind(1733) structur(1185) ligand(1036) }
{ sequenc(1873) structur(1644) protein(1328) }
{ featur(3375) classif(2383) classifi(1994) }
{ imag(2830) propos(1344) filter(1198) }
{ network(2748) neural(1063) input(814) }
{ imag(2675) segment(2577) method(1081) }
{ assess(1506) score(1403) qualiti(1306) }
{ treatment(1704) effect(941) patient(846) }
{ error(1145) method(1030) estim(1020) }
{ learn(2355) train(1041) set(1003) }
{ clinic(1479) use(1117) guidelin(835) }
{ method(1557) propos(1049) approach(1037) }
{ design(1359) user(1324) use(1319) }
{ control(1307) perform(991) simul(935) }
{ model(2220) cell(1177) simul(1124) }
{ case(1353) use(1143) diagnosi(1136) }
{ risk(3053) factor(974) diseas(938) }
{ perform(999) metric(946) measur(919) }
{ research(1085) discuss(1038) issu(1018) }
{ import(1318) role(1303) understand(862) }
{ model(2341) predict(2261) use(1141) }
{ compound(1573) activ(1297) structur(1058) }
{ blood(1257) pressur(1144) flow(957) }
{ spatial(1525) area(1432) region(1030) }
{ model(3480) simul(1196) paramet(876) }
{ monitor(1329) mobil(1314) devic(1160) }
{ ehr(2073) health(1662) electron(1139) }
{ research(1218) medic(880) student(794) }
{ patient(2837) hospit(1953) medic(668) }
{ data(2317) use(1299) case(1017) }
{ age(1611) year(1155) adult(843) }
{ cost(1906) reduc(1198) effect(832) }
{ sampl(1606) size(1419) use(1276) }
{ data(3008) multipl(1320) sourc(1022) }
{ first(2504) two(1366) second(1323) }
{ 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) }
{ analysi(2126) use(1163) compon(1037) }
{ structur(1116) can(940) graph(676) }
{ high(1669) rate(1365) level(1280) }
{ 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) }
{ activ(1452) weight(1219) physic(1104) }
{ method(2212) result(1239) propos(1039) }
{ detect(2391) sensit(1101) algorithm(908) }

Resumo

The rise of personalized medicine and the availability of high-throughput molecular analyses in the context of clinical care have increased the need for adequate tools for translational researchers to manage and explore these data. We reviewed the biomedical literature for translational platforms allowing the management and exploration of clinical and omics data, and identified seven platforms: BRISK, caTRIP, cBio Cancer Portal, G-DOC, iCOD, iDASH and tranSMART. We analyzed these platforms along seven major axes. (1) The community axis regrouped information regarding initiators and funders of the project, as well as availability status and references. (2) We regrouped under the information content axis the nature of the clinical and omics data handled by each system. (3) The privacy management environment axis encompassed functionalities allowing control over data privacy. (4) In the analysis support axis, we detailed the analytical and statistical tools provided by the platforms. We also explored (5) interoperability support and (6) system requirements. The final axis (7) platform support listed the availability of documentation and installation procedures. A large heterogeneity was observed in regard to the capability to manage phenotype information in addition to omics data, their security and interoperability features. The analytical and visualization features strongly depend on the considered platform. Similarly, the availability of the systems is variable. This review aims at providing the reader with the background to choose the platform best suited to their needs. To conclude, we discuss the desiderata for optimal translational research platforms, in terms of privacy, interoperability and technical features.

Resumo Limpo

rise person medicin avail highthroughput molecular analys context clinic care increas need adequ tool translat research manag explor data review biomed literatur translat platform allow manag explor clinic omic data identifi seven platform brisk catrip cbio cancer portal gdoc icod idash transmart analyz platform along seven major axe communiti axi regroup inform regard initi funder project well avail status refer regroup inform content axi natur clinic omic data handl system privaci manag environ axi encompass function allow control data privaci analysi support axi detail analyt statist tool provid platform also explor interoper support system requir final axi platform support list avail document instal procedur larg heterogen observ regard capabl manag phenotyp inform addit omic data secur interoper featur analyt visual featur strong depend consid platform similar avail system variabl review aim provid reader background choos platform best suit need conclud discuss desiderata optim translat research platform term privaci interoper technic featur

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