Comput Methods Programs Biomed - pairheatmap: comparing expression profiles of gene groups in heatmaps.

Tópicos

{ data(1714) softwar(1251) tool(1186) }
{ state(1844) use(1261) util(961) }
{ first(2504) two(1366) second(1323) }
{ can(981) present(881) function(850) }
{ method(1557) propos(1049) approach(1037) }
{ data(1737) use(1416) pattern(1282) }
{ chang(1828) time(1643) increas(1301) }
{ model(2341) predict(2261) use(1141) }
{ visual(1396) interact(850) tool(830) }
{ group(2977) signific(1463) compar(1072) }
{ gene(2352) biolog(1181) express(1162) }
{ method(1969) cluster(1462) data(1082) }
{ inform(2794) health(2639) internet(1427) }
{ bind(1733) structur(1185) ligand(1036) }
{ take(945) account(800) differ(722) }
{ treatment(1704) effect(941) patient(846) }
{ learn(2355) train(1041) set(1003) }
{ extract(1171) text(1153) clinic(932) }
{ method(984) reconstruct(947) comput(926) }
{ research(1218) medic(880) student(794) }
{ model(2656) set(1616) predict(1553) }
{ medic(1828) order(1363) alert(1069) }
{ drug(1928) target(777) effect(648) }
{ model(3404) distribut(989) bayesian(671) }
{ can(774) often(719) complex(702) }
{ imag(1947) propos(1133) code(1026) }
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{ measur(2081) correl(1212) valu(896) }
{ imag(1057) registr(996) error(939) }
{ sequenc(1873) structur(1644) protein(1328) }
{ method(1219) similar(1157) match(930) }
{ featur(3375) classif(2383) classifi(1994) }
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{ network(2748) neural(1063) input(814) }
{ imag(2675) segment(2577) method(1081) }
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{ error(1145) method(1030) estim(1020) }
{ concept(1167) ontolog(924) domain(897) }
{ clinic(1479) use(1117) guidelin(835) }
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{ care(1570) inform(1187) nurs(1089) }
{ general(901) number(790) one(736) }
{ search(2224) databas(1162) retriev(909) }
{ featur(1941) imag(1645) propos(1176) }
{ case(1353) use(1143) diagnosi(1136) }
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{ 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) }
{ model(3480) simul(1196) paramet(876) }
{ monitor(1329) mobil(1314) devic(1160) }
{ ehr(2073) health(1662) electron(1139) }
{ patient(2837) hospit(1953) medic(668) }
{ data(2317) use(1299) case(1017) }
{ age(1611) year(1155) adult(843) }
{ signal(2180) analysi(812) frequenc(800) }
{ cost(1906) reduc(1198) effect(832) }
{ 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) }
{ analysi(2126) use(1163) compon(1037) }
{ health(1844) social(1437) communiti(874) }
{ structur(1116) can(940) graph(676) }
{ high(1669) rate(1365) level(1280) }
{ 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) }
{ survey(1388) particip(1329) question(1065) }
{ estim(2440) model(1874) function(577) }
{ decis(3086) make(1611) patient(1517) }
{ process(1125) use(805) approach(778) }
{ activ(1452) weight(1219) physic(1104) }
{ method(2212) result(1239) propos(1039) }
{ detect(2391) sensit(1101) algorithm(908) }

Resumo

This paper presents a new visualization software called pairheatmap, which is able to generate and compare two heatmaps so as to compare expression patterns of gene groups. It adds a conditioning variable such as time to the heatmap, and provides separate clustering for row groups in the first heatmap in order to visualize pattern changes between two heatmaps. pairheatmap is developed in R statistical environment. It provides: (1) the flexible framework for comparing two heatmaps; and (2) high-quality figures based on R package grid. The general architecture can be efficiently incorporated into bioinformatics pipeline. The package and user documentation are free to download at http://cran.r-project.org/web/packages/pairheatmap/index.html.

Resumo Limpo

paper present new visual softwar call pairheatmap abl generat compar two heatmap compar express pattern gene group add condit variabl time heatmap provid separ cluster row group first heatmap order visual pattern chang two heatmap pairheatmap develop r statist environ provid flexibl framework compar two heatmap highqual figur base r packag grid general architectur can effici incorpor bioinformat pipelin packag user document free download httpcranrprojectorgwebpackagespairheatmapindexhtml

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