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100%;background-color: rgb(93, 91, 92);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;min-width: 5%;max-width: 100%;flex: 0 0 auto;height: auto;align-self: center;padding: 0px 18px;box-sizing: border-box;\">\n<section style=\"text-align: center;margin: 20px 0px 0px;box-sizing: border-box;\">\n<section style=\"display: inline-block;width: 0px;height: 0px;vertical-align: top;overflow: hidden;padding: 0px;border-style: solid;border-width: 13px 8px 0px;border-color: rgb(93, 91, 92) rgba(255, 255, 255, 0) rgb(251, 133, 129);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;flex: 100 100 0%;height: auto;align-self: center;box-sizing: border-box;\">\n<section style=\"overflow: hidden;text-align: center;margin: 0px;box-sizing: border-box;\">\n<section style=\"display: inline-block;vertical-align: middle;width: 6px;height: 6px;box-sizing: border-box;\">\n<section style=\"transform: rotate(0.1deg);-webkit-transform: rotate(0.1deg);-moz-transform: rotate(0.1deg);-o-transform: rotate(0.1deg);box-sizing: border-box;\">\n<section style=\"width: 6px;height: 6px;border-radius: 100%;background-color: rgb(93, 91, 92);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: 100%;margin: 0px -6px 0px -7px;border-bottom: 2px dotted rgb(93, 91, 92);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: 6px;height: 6px;border-radius: 100%;background-color: rgb(93, 91, 92);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<p style=\"white-space: normal;margin: 0px;padding: 0px;box-sizing: border-box;\"> \u9996\u5148\uff0c\u8ba9\u6211\u4eec\u6253\u5f00GEO\u7684\u6570\u636e\u96c6\u68c0\u7d22\u9875\u9762\uff0c<\/p>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.4601851851851852\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_aBWuYuYeQz8VktsgEH4lOCyic8rTNQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZYGk64ZK2NuIkKuOibgpmFP3sspiaBWuYuYeQz8VktsgEH4lOCyic8rTNQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;margin: 0px;padding: 0px;box-sizing: border-box;\">\u7136\u540e\u5728\u53f3\u4e0a\u89d2\u8f93\u5165\u6211\u4eec\u60f3\u8981\u68c0\u7d22\u7684\u6570\u636e\u96c6\uff0c\u4f8b\u5982\u5927\u6d77\u54e5\u627e\u7684\u8fd9\u4e2a\u6570\u636e\u96c6\uff0c<\/p>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.7087248322147651\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-09-09_\u300c\u8f6c\u300d\u53ea\u970010\u5206\u949f\uff0c\u641e\u5b9a\u4e00\u5957\u6d41\u7a0b\uff0cGEO\u6570\u636e\u5408\u5e76\u5230\u53bb\u9664\u6279\u6b21\u6548\u5e94\/2_XcM2HUw5Jmm5eCqWiasvlSCHsjJj5w.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZACo9detvAlyp8DFgXFic1MgebIXcM2HUw5Jmm5eCqWiasvlSCHsjJj5w\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"745\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;margin: 0px;padding: 0px;box-sizing: border-box;\">\u79fb\u5230\u6700\u4e0b\u65b9\uff0c\u70b9\u51fb\u4e0b\u8f7d\uff0c\u7136\u540e\u5c31\u53ef\u4ee5\u5f97\u5230\u4e00\u4e2a\u538b\u7f29\u5305\uff0c\u6211\u4eec\u9996\u5148\u9700\u8981\u628a\u8fd9\u4e2a\u538b\u7f29\u5305\u89e3\u538b\u5230\u4e00\u4e2a\u6587\u4ef6\u5939\u4e2d\uff0c\u7136\u540e\u5c31\u53ef\u4ee5\u4f7f\u7528\u6211\u4eec\u7684\u4ee3\u7801\u6765\u5b8c\u6210\u5269\u4e0b\u7684\u64cd\u4f5c\u5566\uff01<\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u9996\u5148\u52a0\u8f7d\u9700\u8981\u7684R\u5305<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(affy)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(limma)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(stringr)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(AnnoProbe)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(magrittr)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u8bfb\u53d6\u6587\u4ef6\u5939\u5185\u7684\u6240\u6709\u6587\u4ef6\uff0cdata\u5c31\u662f\u6587\u4ef6\u5939\u540d\uff0c\u5927\u5bb6\u81ea\u884c\u4fee\u6539\u54e6<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">rawdata <- affy::ReadAffy(celfile.path = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"data\"<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u7136\u540e\u6211\u4eec\u9700\u8981\u5bf9\u6570\u636e\u8fdb\u884crma\u6807\u51c6\u5316<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">rawdata %<>% affy::rma()<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">exprs <- Biobase::exprs(rawdata)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">range<\/span>(exprs, na.rm = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">TRUE<\/span>) <span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\"># 1.889917 14.620563 \u4e0d\u8d85\u8fc750\u4e0d\u9700\u8981log2\u8f6c\u5316<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\"># \u5217\u91cd\u547d\u540d<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">colnames(exprs) <- stringr::str_split(string=colnames(exprs),pattern = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\".\"<\/span>, simplify = <span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">T<\/span>)[, <span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">1<\/span>]<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u7136\u540e\u4e00\u822c\u6211\u4eec\u90fd\u4f1a\u9009\u62e9\u7bb1\u578b\u56fe\u67e5\u770b\u4e00\u4e0b\u6570\u636e\u7684\u5206\u5e03\u60c5\u51b5<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">boxplot(exprs, outline = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>, notch = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>, las = <span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">2<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.4818523153942428\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-09-09_\u300c\u8f6c\u300d\u53ea\u970010\u5206\u949f\uff0c\u641e\u5b9a\u4e00\u5957\u6d41\u7a0b\uff0cGEO\u6570\u636e\u5408\u5e76\u5230\u53bb\u9664\u6279\u6b21\u6548\u5e94\/3_FKOzGmkJNbaXlUBymuu02vvG89zbvQ.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZR9rD2xCpgRb6cjFqjsdpcpaVFKOzGmkJNbaXlUBymuu02vvG89zbvQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"799\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u540c\u65f6\u6211\u4eec\u8fd8\u53ef\u4ee5\u5bf9\u5176\u8fdb\u884climma\u6807\u51c6\u5316<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">exprs %<>% limma::normalizeBetweenArrays()<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">boxplot(exprs, outline = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>, notch = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>, las = <span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">2<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">range<\/span>(exprs, na.rm = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">TRUE<\/span>) <span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\"># 2.09520 14.30741<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">exprs %<>% as_tibble(rownames = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"probe_id\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.4603960396039604\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_VFvO5RbsuIHye2YcfOLDsTVVVX0HEQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZNPTf4zZ9gPWFDfibjRPFxqP9hVFvO5RbsuIHye2YcfOLDsTVVVX0HEQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"808\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u7136\u540e\u6211\u4eec\u9700\u8981\u83b7\u53d6\u5bf9\u5e94\u7684\u63a2\u9488\u6ce8\u91ca\u6587\u4ef6<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\"># \u5f97\u5230\u63a2\u9488\u5bf9\u5e94\u7684\u57fa\u56e0\u540d\u5b57<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">probe2Symbol <- AnnoProbe::idmap(<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"GPL570\"<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\"># \u770b\u770b\u524d\u51e0\u884c<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">head(probe2Symbol,<span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">3<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.38181818181818183\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-09-09_\u300c\u8f6c\u300d\u53ea\u970010\u5206\u949f\uff0c\u641e\u5b9a\u4e00\u5957\u6d41\u7a0b\uff0cGEO\u6570\u636e\u5408\u5e76\u5230\u53bb\u9664\u6279\u6b21\u6548\u5e94\/5_6pqaibt7XCwhf2Xdia8Xx9CRLDV32g.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZOlCS6CW7ibrlwNgPXuItzX0olTl6pqaibt7XCwhf2Xdia8Xx9CRLDV32g\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"220\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">\u7136\u540e\u8f6c\u6362\u4e00\u4e0b\u63a2\u9488\u7684ID\u4e3aSymbol<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">transid <- <span class=\"code-snippet__keyword\" style=\"box-sizing: border-box;\">function<\/span>(probe2Symbol, exprs, method = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"median\"<\/span>) {<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> probe2Symbol$probe_id %<>% <span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">as.character<\/span>()<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> exprs$probe_id %<>% <span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">as.character<\/span>()<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> exprs %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::inner_join(probe2Symbol, by = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"probe_id\"<\/span>) %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::select(-probe_id) %>% <\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::select(symbol, everything()) %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::mutate(ref = apply(across(where(<span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">is.numeric<\/span>)), <span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">1<\/span>, method)) %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::arrange(desc(ref)) %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::select(-ref) %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::distinct(symbol, .keep_all = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">TRUE<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">}<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\"><br \/><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">expression <- transid(probe2Symbol, exprs, method = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"median\"<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\"><br \/><\/span><\/code><\/pre>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u7136\u540e\u6211\u4eec\u8fd9\u5c31\u5f97\u5230\u4e86\u4e00\u4e2a\u6574\u7406\u597d\u7684\u6570\u636e<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u63a5\u4e0b\u6765\u6211\u4eec\u9700\u8981\u627e\u5230\u53e6\u4e00\u4e2a\u6570\u636e\u96c6\uff0c\u7136\u540e\u5f00\u59cb\u5408\u5e76\uff0c\u8fd9\u91cc\u5c31\u4e0d\u4ecb\u7ecd\u76f8\u540c\u7684\u6d41\u7a0b\u5566\uff01\u76f4\u63a5\u5feb\u8fdb\u5230\u5408\u5e76\u73af\u8282\u5427\uff01<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\"><br \/><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u6ca1\u6709\u8bf7\u5148\u5b89\u88c5\u8fd9\u4e2a\u5305<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">BiocManager::install(<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"sva\"<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u5bfc\u5165\u6570\u636e\uff0ccount\u6570\u636e\u5c31\u662f\u6211\u4eec\u5408\u5e76\u540e\u7684\u6570\u636e\uff0c\u4fdd\u7559\u76f8\u540c\u57fa\u56e0\u7136\u540e\u76f4\u63a5\u5408\u5e76\u54e6\uff0c<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">count <- read.csv(<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"count.csv\"<\/span>,header = <span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">T<\/span>,row.names = <span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">1<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u8fc7\u6ee4\u6389\u4f4e\u8868\u8fbe\u7684\u57fa\u56e0<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">Expr <- count[rowSums(count)><span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">1<\/span>,]<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##\u8f7d\u5165\u6837\u54c1\u4fe1\u606f\uff0c\u542b\u6279\u6b21<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">data <- read.table(<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"data.txt\"<\/span>,header = <span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">T<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">data[,<span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">2<\/span>] <- as.factor(data$type)<span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##type\u8868\u793a\u7684\u662f\u751f\u7269\u5b66\u4e0a\u7684\u4e0d\u540c\u5904\u7406<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">data[,<span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">3<\/span>] <- as.factor(data$batch)<span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##batch\u8868\u793a\u4e0d\u540c\u7684\u6279\u6b21\u4fe1\u606f<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">row.names(data) <- data$sample<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.6123711340206186\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-09-09_\u300c\u8f6c\u300d\u53ea\u970010\u5206\u949f\uff0c\u641e\u5b9a\u4e00\u5957\u6d41\u7a0b\uff0cGEO\u6570\u636e\u5408\u5e76\u5230\u53bb\u9664\u6279\u6b21\u6548\u5e94\/6_O7Qq5l7rU6BcnrJfsS3vEiawIDOI6g.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZeghwWHz5DzOoNwjSF3syiaJIWKO7Qq5l7rU6BcnrJfsS3vEiawIDOI6g\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"485\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#batch\u5bf9\u5e94\u7684\u5c31\u662f\u6837\u672c\u7684\u6279\u6b21\uff0cbatch1\u5c31\u662f\u7b2c\u4e00\u4e2a\u6570\u636e\u96c6\uff0cbatch2\u5c31\u662f\u7b2c\u4e8c\u4e2a\u6570\u636e\u96c6<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u6211\u4eec\u5148\u6765\u770b\u770b\u5904\u7406\u4e4b\u524d\uff0c\u6570\u636e\u7684\u5206\u5e03\u60c5\u51b5<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(FactoMineR)<span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##\u6ca1\u6709\u8bf7\u5148\u5b89\u88c5<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">pre.pca <- PCA(t(Expr),graph = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">fviz_pca_ind(pre.pca,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> geom= <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"point\"<\/span>,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> col.ind = data$batch,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> addEllipses = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">TRUE<\/span>,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> legend.title=<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"Group\"<\/span> )<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.5990740740740741\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_6If2lmYnfexDPVicBfHxOiaFrScfGw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZCDFxJWibvnrL1haFO9gr79wXqnh6If2lmYnfexDPVicBfHxOiaFrScfGw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u53ef\u4ee5\u770b\u5230\u5904\u7406\u4e4b\u524d\uff0c\u6570\u636e\u90fd\u662f\u5728\u4e0d\u540c\u7684\u533a\u57df\uff0c\u8bf4\u660e\u5b58\u5728\u4e00\u5b9a\u7684\u6279\u6b21\u6548\u5e94<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u5efa\u7acb\u6279\u6b21\u6548\u5e94\u7684\u6a21\u578b\uff0cdata$type\u8868\u793a\u7684\u662f\u6570\u636e\u4e2d\u9664\u4e86\u6709\u4e0d\u540c\u7684\u6279\u6b21\uff0c\u8fd8\u6709\u751f\u7269\u5b66\u4e0a\u7684\u5dee\u5f02\u3002<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u5728\u6821\u6b63\u7684\u65f6\u5019\u8981\u4fdd\u7559\u751f\u7269\u5b66\u4e0a\u7684\u5dee\u5f02\uff0c\u4e0d\u80fd\u77eb\u6b63\u8fc7\u6789\u3002<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">model <- model.matrix(~as.factor(data$type))<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##\u6d88\u9664\u6279\u6b21\u6548\u5e94<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(sva)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">combat_Expr <- ComBat(dat = Expr,batch = data$batch,mod = model)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##combat_Expr\u5c31\u662f\u6821\u6b63\u540e\u7684\u6570\u636e<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\"><br \/><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u518d\u770b\u770b\u5904\u7406\u4e4b\u540e\u7684\u6570\u636e<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(FactoMineR)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">af1.pca <- PCA(t(combat_Expr),graph = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">combat.pca <- PCA(t(combat_Expr),graph = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">fviz_pca_ind(combat.pca,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> geom= <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"point\"<\/span>,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> col.ind = data$batch,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> addEllipses = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">TRUE<\/span>,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> legend.title=<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"Group\"<\/span> )<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.8492957746478873\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-09-09_\u300c\u8f6c\u300d\u53ea\u970010\u5206\u949f\uff0c\u641e\u5b9a\u4e00\u5957\u6d41\u7a0b\uff0cGEO\u6570\u636e\u5408\u5e76\u5230\u53bb\u9664\u6279\u6b21\u6548\u5e94\/8_VBS7xnNv2tIZdj5IZsNibibF6knkJw.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZiaDfZ6Aib5CXDXjyLGqode9AxUHWVBS7xnNv2tIZdj5IZsNibibF6knkJw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"710\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u53ef\u4ee5\u770b\u5230\uff0c\u4e0d\u540c\u6279\u6b21\u7684\u6837\u54c1\u91cd\u53e0\u5728\u4e00\u8d77\uff0c\u8bc1\u660e\u6279\u6b21\u6548\u5e94\u53ef\u4ee5\u901a\u8fc7sva\u5305\u964d\u4f4e\u3002<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u63a5\u7740\u5c31\u53ef\u4ee5\u7528combat_Expr \u8fd9\u4e2a\u6570\u636e\u505a\u540e\u7eed\u5206\u6790\u5566\uff01<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u867d\u7136\u4f46\u662f\uff0c\u53ef\u4ee5\u6253\u5f00\u8fd9\u4efd\u6821\u6b63\u540e\u7684\u6570\u636e\u770b\u770b\uff0c\u4f60\u4f1a\u53d1\u73b0\u4f3c\u4e4e\u6709\u4e00\u4e9b\u6570\u636e\u51fa\u73b0\u4e86\u8d1f\u6570\u7684\u60c5\u51b5\uff0c\u800c\u4e14\u672c\u6765\u4e3a\u6574\u6570\u7684count\u6570\u636e\u4e5f\u53d8\u6210\u4e86\u5c0f\u6570\u3002\u8fd9\u6837\u5c31\u4e0d\u80fd\u7528DESeq2\u5305\u8fdb\u884c\u5dee\u5f02\u5206\u6790\u4e86\uff0c\u56e0\u4e3a\u8fd9\u4e2a\u5305\u8981\u6c42\u7684\u57fa\u56e0\u8868\u8fbe\u91cf\u6570\u636e\u5fc5\u987b\u4e3a\u6574\u6570\u7684row_count\u6570\u636e\uff0c\u6240\u4ee5\u540e\u7eed\u5dee\u5f02\u5206\u6790\u53ef\u4ee5\u4f7f\u7528limma\u5305\u6765\u5b8c\u6210\u54e6\uff01<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"display: flex;flex-flow: row;margin: 10px 0% 20px;text-align: left;justify-content: flex-start;box-sizing: border-box;\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;align-self: flex-start;line-height: 0;box-sizing: border-box;\">\n<section style=\"text-align: right;margin: 0px 0% -20px;box-sizing: border-box;\">\n<section style=\"display: inline-block;width: 8px;height: 20px;vertical-align: top;overflow: hidden;border-width: 0px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 241, 224);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<section style=\"text-align: center;box-sizing: border-box;\">\n<section style=\"display: inline-block;width: 16px;height: 20px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 21px 21px 0px 0px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(231, 215, 173);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section 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border-box;\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;background-color: rgb(245, 241, 224);min-width: 10%;max-width: 100%;flex: 0 0 auto;height: auto;align-self: flex-start;box-sizing: border-box;\">\n<section style=\"display: flex;flex-flow: row;margin: -9px 0% 5px;justify-content: flex-start;box-sizing: border-box;\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;line-height: 0;align-self: flex-start;border-width: 0px;margin: 5px 0px 0px 7px;box-sizing: border-box;\">\n<section style=\"text-align: center;box-sizing: border-box;\">\n<section style=\"display: inline-block;width: 2px;height: 10px;vertical-align: top;overflow: hidden;background-color: rgb(59, 149, 115);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<section style=\"text-align: center;margin: -6px 0% 4px;box-sizing: border-box;\">\n<section 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100%;flex: 0 0 auto;height: auto;box-sizing: border-box;\">\n<section style=\"margin: 0px 0%;text-align: center;transform: translate3d(-1px, 0px, 0px);-webkit-transform: translate3d(-1px, 0px, 0px);-moz-transform: translate3d(-1px, 0px, 0px);-o-transform: translate3d(-1px, 0px, 0px);box-sizing: border-box;\">\n<section style=\"color: rgb(59, 149, 115);font-size: 17px;padding: 0px 11px;line-height: 1;text-align: justify;box-sizing: border-box;\">\n<p style=\"text-align: left;white-space: normal;margin: 0px;padding: 0px;box-sizing: border-box;\"><strong style=\"box-sizing: border-box;\">\u70b9\u51fb\u84dd\u5b57 \u5173\u6ce8\u6211\u4eec<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;line-height: 0;flex: 0 0 0%;height: auto;box-sizing: border-box;\">\n<section style=\"text-align: center;box-sizing: border-box;\">\n<section style=\"display: inline-block;width: 16px;height: 12px;vertical-align: top;overflow: hidden;background-color: rgb(59, 149, 115);padding: 0px 2px;box-sizing: border-box;\">\n<section style=\"justify-content: center;display: flex;flex-flow: row;box-sizing: border-box;\">\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;box-sizing: border-box;\">\n<section style=\"margin: 4px 0% 0px;box-sizing: border-box;\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;box-sizing: border-box;\">\n<section style=\"margin: 4px 0% 0px;box-sizing: border-box;\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"text-align: center;transform: translate3d(3px, 0px, 0px);-webkit-transform: translate3d(3px, 0px, 0px);-moz-transform: translate3d(3px, 0px, 0px);-o-transform: translate3d(3px, 0px, 0px);box-sizing: border-box;\">\n<section style=\"display: inline-block;width: 0px;height: 0px;vertical-align: top;overflow: hidden;border-style: solid;border-width: 0px 0px 4px 4px;border-color: rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgb(59, 149, 115);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p style=\"white-space: normal;margin: 0px;padding: 0px;box-sizing: border-box;\">\u5927\u5bb6\u597d\u554a\uff0c\u6211\u662f\u4f60\u4eec\u719f\u6089\u7684\u5927\u6d77\u54e5\uff0c\u4eca\u5929\u4f60\u5927\u6d77\u54e5\u8981\u7ed9\u5927\u5bb6\u5206\u4eab\u7684\u662f\u4e00\u4e2a\u6d41\u7a0b\u6559\u5b66\uff0c\u8fd9\u4e2a\u6d41\u7a0b\u4e5f\u662f\u54b1\u4eec\u751f\u4fe1\u4eba\u5fc5\u987b\u638c\u63e1\u7684\u4e00\u4e2a\u6d41\u7a0b\uff0c\u4f46\u662f\u5f88\u591a\u5c0f\u4f19\u4f34\u5728\u8fd9\u4e00\u6b65\u603b\u662f\u628a\u63e1\u4e0d\u597d\u8fd9\u4e2a\u5ea6\uff0c\u603b\u662f\u51fa\u73b0\u4ee3\u7801\u51fa\u95ee\u9898\u4e0d\u77e5\u9053\u5982\u4f55\u89e3\u51b3\uff0c\u90a3\u4eca\u5929\u5927\u6d77\u54e5\u5c31\u505a\u4e00\u4e2a\u8be6\u7ec6\u7684R\u8bed\u8a00\u4ee3\u7801\u5b9e\u73b0\u6559\u5b66\uff0c\u8ba9\u4f60\u5f7b\u5e95\u638c\u63e1\u5982\u4f55\u6574\u5408GEO\u6570\u636e\u5e76\u53bb\u9664\u6279\u6b21\u6548\u5e94\u7684\u5b8c\u6574\u6d41\u7a0b\u3002<br style=\"box-sizing: border-box;\" \/>\u672c\u6b21\u5206\u6790\u5462\uff0c\u6211\u4eec\u9009\u62e9\u5927\u5bb6\u6700\u5e38\u89c1\u7684CEL\u6587\u4ef6\uff0c\u90a3\u4e48CEL\u6587\u4ef6\u662f\u4ec0\u4e48\u5462\uff1f\u5176\u5b9e\u5b83\u7684\u5168\u79f0\u7ffb\u8bd1\u5c31\u662f\u63a2\u9488\u7684\u4fe1\u53f7\u503c\u548c\u5b9a\u4f4d\u4fe1\u606f\uff0c\u662fAffymetrix\u516c\u53f8\u7684\u82af\u7247\u539f\u59cb\u6570\u636e\u3002<br style=\"box-sizing: border-box;\" \/>\u90a3\u4e48\u672c\u6b21\u6211\u4eec\u5c31\u662f\u7528\u540c\u79cd\u75be\u75c5\u7684\u4e24\u4e2a\u6570\u636e\u96c6\u6765\u5b8c\u6210\u8fd9\u6b21\u5206\u6790\u6559\u5b66\uff0c\u8bdd\u4e0d\u591a\u8bf4\uff0c\u5f00\u59cb\u5427\uff01<br style=\"box-sizing: border-box;\" \/><\/p>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row;margin: 10px 0px;box-sizing: border-box;\">\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 100 100 0%;height: auto;box-sizing: border-box;\">\n<section style=\"overflow: hidden;text-align: center;margin: 0px;box-sizing: border-box;\">\n<section style=\"display: inline-block;vertical-align: middle;width: 6px;height: 6px;box-sizing: border-box;\">\n<section style=\"transform: rotate(0.1deg);-webkit-transform: rotate(0.1deg);-moz-transform: rotate(0.1deg);-o-transform: rotate(0.1deg);box-sizing: border-box;\">\n<section style=\"width: 6px;height: 6px;border-radius: 100%;background-color: rgb(93, 91, 92);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: 100%;margin: 0px -6px 0px -7px;border-bottom: 2px dotted rgb(93, 91, 92);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: 6px;height: 6px;border-radius: 100%;background-color: rgb(93, 91, 92);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;min-width: 5%;max-width: 100%;flex: 0 0 auto;height: auto;align-self: center;padding: 0px 18px;box-sizing: border-box;\">\n<section style=\"text-align: center;margin: 20px 0px 0px;box-sizing: border-box;\">\n<section style=\"display: inline-block;width: 0px;height: 0px;vertical-align: top;overflow: hidden;padding: 0px;border-style: solid;border-width: 13px 8px 0px;border-color: rgb(93, 91, 92) rgba(255, 255, 255, 0) rgb(251, 133, 129);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;flex: 100 100 0%;height: auto;align-self: center;box-sizing: border-box;\">\n<section style=\"overflow: hidden;text-align: center;margin: 0px;box-sizing: border-box;\">\n<section style=\"display: inline-block;vertical-align: middle;width: 6px;height: 6px;box-sizing: border-box;\">\n<section style=\"transform: rotate(0.1deg);-webkit-transform: rotate(0.1deg);-moz-transform: rotate(0.1deg);-o-transform: rotate(0.1deg);box-sizing: border-box;\">\n<section style=\"width: 6px;height: 6px;border-radius: 100%;background-color: rgb(93, 91, 92);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: 100%;margin: 0px -6px 0px -7px;border-bottom: 2px dotted rgb(93, 91, 92);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: 6px;height: 6px;border-radius: 100%;background-color: rgb(93, 91, 92);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<p style=\"white-space: normal;margin: 0px;padding: 0px;box-sizing: border-box;\"> \u9996\u5148\uff0c\u8ba9\u6211\u4eec\u6253\u5f00GEO\u7684\u6570\u636e\u96c6\u68c0\u7d22\u9875\u9762\uff0c<\/p>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.4601851851851852\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_aBWuYuYeQz8VktsgEH4lOCyic8rTNQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZYGk64ZK2NuIkKuOibgpmFP3sspiaBWuYuYeQz8VktsgEH4lOCyic8rTNQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;margin: 0px;padding: 0px;box-sizing: border-box;\">\u7136\u540e\u5728\u53f3\u4e0a\u89d2\u8f93\u5165\u6211\u4eec\u60f3\u8981\u68c0\u7d22\u7684\u6570\u636e\u96c6\uff0c\u4f8b\u5982\u5927\u6d77\u54e5\u627e\u7684\u8fd9\u4e2a\u6570\u636e\u96c6\uff0c<\/p>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.7087248322147651\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-09-09_\u300c\u8f6c\u300d\u53ea\u970010\u5206\u949f\uff0c\u641e\u5b9a\u4e00\u5957\u6d41\u7a0b\uff0cGEO\u6570\u636e\u5408\u5e76\u5230\u53bb\u9664\u6279\u6b21\u6548\u5e94\/2_XcM2HUw5Jmm5eCqWiasvlSCHsjJj5w.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZACo9detvAlyp8DFgXFic1MgebIXcM2HUw5Jmm5eCqWiasvlSCHsjJj5w\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"745\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;margin: 0px;padding: 0px;box-sizing: border-box;\">\u79fb\u5230\u6700\u4e0b\u65b9\uff0c\u70b9\u51fb\u4e0b\u8f7d\uff0c\u7136\u540e\u5c31\u53ef\u4ee5\u5f97\u5230\u4e00\u4e2a\u538b\u7f29\u5305\uff0c\u6211\u4eec\u9996\u5148\u9700\u8981\u628a\u8fd9\u4e2a\u538b\u7f29\u5305\u89e3\u538b\u5230\u4e00\u4e2a\u6587\u4ef6\u5939\u4e2d\uff0c\u7136\u540e\u5c31\u53ef\u4ee5\u4f7f\u7528\u6211\u4eec\u7684\u4ee3\u7801\u6765\u5b8c\u6210\u5269\u4e0b\u7684\u64cd\u4f5c\u5566\uff01<\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u9996\u5148\u52a0\u8f7d\u9700\u8981\u7684R\u5305<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(affy)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(limma)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(stringr)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(AnnoProbe)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(magrittr)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u8bfb\u53d6\u6587\u4ef6\u5939\u5185\u7684\u6240\u6709\u6587\u4ef6\uff0cdata\u5c31\u662f\u6587\u4ef6\u5939\u540d\uff0c\u5927\u5bb6\u81ea\u884c\u4fee\u6539\u54e6<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">rawdata <- affy::ReadAffy(celfile.path = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"data\"<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u7136\u540e\u6211\u4eec\u9700\u8981\u5bf9\u6570\u636e\u8fdb\u884crma\u6807\u51c6\u5316<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">rawdata %<>% affy::rma()<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">exprs <- Biobase::exprs(rawdata)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">range<\/span>(exprs, na.rm = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">TRUE<\/span>) <span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\"># 1.889917 14.620563 \u4e0d\u8d85\u8fc750\u4e0d\u9700\u8981log2\u8f6c\u5316<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\"># \u5217\u91cd\u547d\u540d<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">colnames(exprs) <- stringr::str_split(string=colnames(exprs),pattern = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\".\"<\/span>, simplify = <span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">T<\/span>)[, <span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">1<\/span>]<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u7136\u540e\u4e00\u822c\u6211\u4eec\u90fd\u4f1a\u9009\u62e9\u7bb1\u578b\u56fe\u67e5\u770b\u4e00\u4e0b\u6570\u636e\u7684\u5206\u5e03\u60c5\u51b5<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">boxplot(exprs, outline = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>, notch = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>, las = <span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">2<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.4818523153942428\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-09-09_\u300c\u8f6c\u300d\u53ea\u970010\u5206\u949f\uff0c\u641e\u5b9a\u4e00\u5957\u6d41\u7a0b\uff0cGEO\u6570\u636e\u5408\u5e76\u5230\u53bb\u9664\u6279\u6b21\u6548\u5e94\/3_FKOzGmkJNbaXlUBymuu02vvG89zbvQ.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZR9rD2xCpgRb6cjFqjsdpcpaVFKOzGmkJNbaXlUBymuu02vvG89zbvQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"799\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u540c\u65f6\u6211\u4eec\u8fd8\u53ef\u4ee5\u5bf9\u5176\u8fdb\u884climma\u6807\u51c6\u5316<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">exprs %<>% limma::normalizeBetweenArrays()<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">boxplot(exprs, outline = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>, notch = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>, las = <span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">2<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">range<\/span>(exprs, na.rm = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">TRUE<\/span>) <span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\"># 2.09520 14.30741<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">exprs %<>% as_tibble(rownames = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"probe_id\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.4603960396039604\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_VFvO5RbsuIHye2YcfOLDsTVVVX0HEQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZNPTf4zZ9gPWFDfibjRPFxqP9hVFvO5RbsuIHye2YcfOLDsTVVVX0HEQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"808\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u7136\u540e\u6211\u4eec\u9700\u8981\u83b7\u53d6\u5bf9\u5e94\u7684\u63a2\u9488\u6ce8\u91ca\u6587\u4ef6<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\"># \u5f97\u5230\u63a2\u9488\u5bf9\u5e94\u7684\u57fa\u56e0\u540d\u5b57<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">probe2Symbol <- AnnoProbe::idmap(<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"GPL570\"<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\"># \u770b\u770b\u524d\u51e0\u884c<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">head(probe2Symbol,<span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">3<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.38181818181818183\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-09-09_\u300c\u8f6c\u300d\u53ea\u970010\u5206\u949f\uff0c\u641e\u5b9a\u4e00\u5957\u6d41\u7a0b\uff0cGEO\u6570\u636e\u5408\u5e76\u5230\u53bb\u9664\u6279\u6b21\u6548\u5e94\/5_6pqaibt7XCwhf2Xdia8Xx9CRLDV32g.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZOlCS6CW7ibrlwNgPXuItzX0olTl6pqaibt7XCwhf2Xdia8Xx9CRLDV32g\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"220\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">\u7136\u540e\u8f6c\u6362\u4e00\u4e0b\u63a2\u9488\u7684ID\u4e3aSymbol<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">transid <- <span class=\"code-snippet__keyword\" style=\"box-sizing: border-box;\">function<\/span>(probe2Symbol, exprs, method = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"median\"<\/span>) {<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> probe2Symbol$probe_id %<>% <span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">as.character<\/span>()<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> exprs$probe_id %<>% <span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">as.character<\/span>()<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> exprs %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::inner_join(probe2Symbol, by = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"probe_id\"<\/span>) %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::select(-probe_id) %>% <\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::select(symbol, everything()) %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::mutate(ref = apply(across(where(<span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">is.numeric<\/span>)), <span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">1<\/span>, method)) %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::arrange(desc(ref)) %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::select(-ref) %>%<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> dplyr::distinct(symbol, .keep_all = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">TRUE<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">}<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\"><br \/><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">expression <- transid(probe2Symbol, exprs, method = <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"median\"<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\"><br \/><\/span><\/code><\/pre>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u7136\u540e\u6211\u4eec\u8fd9\u5c31\u5f97\u5230\u4e86\u4e00\u4e2a\u6574\u7406\u597d\u7684\u6570\u636e<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u63a5\u4e0b\u6765\u6211\u4eec\u9700\u8981\u627e\u5230\u53e6\u4e00\u4e2a\u6570\u636e\u96c6\uff0c\u7136\u540e\u5f00\u59cb\u5408\u5e76\uff0c\u8fd9\u91cc\u5c31\u4e0d\u4ecb\u7ecd\u76f8\u540c\u7684\u6d41\u7a0b\u5566\uff01\u76f4\u63a5\u5feb\u8fdb\u5230\u5408\u5e76\u73af\u8282\u5427\uff01<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\"><br \/><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u6ca1\u6709\u8bf7\u5148\u5b89\u88c5\u8fd9\u4e2a\u5305<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">BiocManager::install(<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"sva\"<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u5bfc\u5165\u6570\u636e\uff0ccount\u6570\u636e\u5c31\u662f\u6211\u4eec\u5408\u5e76\u540e\u7684\u6570\u636e\uff0c\u4fdd\u7559\u76f8\u540c\u57fa\u56e0\u7136\u540e\u76f4\u63a5\u5408\u5e76\u54e6\uff0c<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">count <- read.csv(<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"count.csv\"<\/span>,header = <span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">T<\/span>,row.names = <span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">1<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u8fc7\u6ee4\u6389\u4f4e\u8868\u8fbe\u7684\u57fa\u56e0<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">Expr <- count[rowSums(count)><span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">1<\/span>,]<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##\u8f7d\u5165\u6837\u54c1\u4fe1\u606f\uff0c\u542b\u6279\u6b21<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">data <- read.table(<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"data.txt\"<\/span>,header = <span class=\"code-snippet__built_in\" style=\"box-sizing: border-box;\">T<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">data[,<span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">2<\/span>] <- as.factor(data$type)<span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##type\u8868\u793a\u7684\u662f\u751f\u7269\u5b66\u4e0a\u7684\u4e0d\u540c\u5904\u7406<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">data[,<span class=\"code-snippet__number\" style=\"box-sizing: border-box;\">3<\/span>] <- as.factor(data$batch)<span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##batch\u8868\u793a\u4e0d\u540c\u7684\u6279\u6b21\u4fe1\u606f<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">row.names(data) <- data$sample<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.6123711340206186\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-09-09_\u300c\u8f6c\u300d\u53ea\u970010\u5206\u949f\uff0c\u641e\u5b9a\u4e00\u5957\u6d41\u7a0b\uff0cGEO\u6570\u636e\u5408\u5e76\u5230\u53bb\u9664\u6279\u6b21\u6548\u5e94\/6_O7Qq5l7rU6BcnrJfsS3vEiawIDOI6g.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZeghwWHz5DzOoNwjSF3syiaJIWKO7Qq5l7rU6BcnrJfsS3vEiawIDOI6g\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"485\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#batch\u5bf9\u5e94\u7684\u5c31\u662f\u6837\u672c\u7684\u6279\u6b21\uff0cbatch1\u5c31\u662f\u7b2c\u4e00\u4e2a\u6570\u636e\u96c6\uff0cbatch2\u5c31\u662f\u7b2c\u4e8c\u4e2a\u6570\u636e\u96c6<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u6211\u4eec\u5148\u6765\u770b\u770b\u5904\u7406\u4e4b\u524d\uff0c\u6570\u636e\u7684\u5206\u5e03\u60c5\u51b5<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(FactoMineR)<span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##\u6ca1\u6709\u8bf7\u5148\u5b89\u88c5<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">pre.pca <- PCA(t(Expr),graph = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">fviz_pca_ind(pre.pca,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> geom= <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"point\"<\/span>,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> col.ind = data$batch,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> addEllipses = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">TRUE<\/span>,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> legend.title=<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"Group\"<\/span> )<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.5990740740740741\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_6If2lmYnfexDPVicBfHxOiaFrScfGw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZCDFxJWibvnrL1haFO9gr79wXqnh6If2lmYnfexDPVicBfHxOiaFrScfGw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u53ef\u4ee5\u770b\u5230\u5904\u7406\u4e4b\u524d\uff0c\u6570\u636e\u90fd\u662f\u5728\u4e0d\u540c\u7684\u533a\u57df\uff0c\u8bf4\u660e\u5b58\u5728\u4e00\u5b9a\u7684\u6279\u6b21\u6548\u5e94<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u5efa\u7acb\u6279\u6b21\u6548\u5e94\u7684\u6a21\u578b\uff0cdata$type\u8868\u793a\u7684\u662f\u6570\u636e\u4e2d\u9664\u4e86\u6709\u4e0d\u540c\u7684\u6279\u6b21\uff0c\u8fd8\u6709\u751f\u7269\u5b66\u4e0a\u7684\u5dee\u5f02\u3002<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u5728\u6821\u6b63\u7684\u65f6\u5019\u8981\u4fdd\u7559\u751f\u7269\u5b66\u4e0a\u7684\u5dee\u5f02\uff0c\u4e0d\u80fd\u77eb\u6b63\u8fc7\u6789\u3002<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">model <- model.matrix(~as.factor(data$type))<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##\u6d88\u9664\u6279\u6b21\u6548\u5e94<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(sva)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">combat_Expr <- ComBat(dat = Expr,batch = data$batch,mod = model)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">##combat_Expr\u5c31\u662f\u6821\u6b63\u540e\u7684\u6570\u636e<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\"><br \/><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u518d\u770b\u770b\u5904\u7406\u4e4b\u540e\u7684\u6570\u636e<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">library(FactoMineR)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">af1.pca <- PCA(t(combat_Expr),graph = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">combat.pca <- PCA(t(combat_Expr),graph = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">FALSE<\/span>)<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\">fviz_pca_ind(combat.pca,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> geom= <span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"point\"<\/span>,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> col.ind = data$batch,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> addEllipses = <span class=\"code-snippet__literal\" style=\"box-sizing: border-box;\">TRUE<\/span>,<\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"> legend.title=<span class=\"code-snippet__string\" style=\"box-sizing: border-box;\">\"Group\"<\/span> )<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;box-sizing: border-box;\">\n<section style=\"max-width: 100%;vertical-align: middle;display: inline-block;line-height: 0;box-sizing: border-box;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.8492957746478873\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-09-09_\u300c\u8f6c\u300d\u53ea\u970010\u5206\u949f\uff0c\u641e\u5b9a\u4e00\u5957\u6d41\u7a0b\uff0cGEO\u6570\u636e\u5408\u5e76\u5230\u53bb\u9664\u6279\u6b21\u6548\u5e94\/8_VBS7xnNv2tIZdj5IZsNibibF6knkJw.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSQkTrDSVw1h8mZpibrKUdhlZiaDfZ6Aib5CXDXjyLGqode9AxUHWVBS7xnNv2tIZdj5IZsNibibF6knkJw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"710\" style=\"vertical-align: middle;max-width: 100%;width: 100%;box-sizing: border-box;\" \/><\/section>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u53ef\u4ee5\u770b\u5230\uff0c\u4e0d\u540c\u6279\u6b21\u7684\u6837\u54c1\u91cd\u53e0\u5728\u4e00\u8d77\uff0c\u8bc1\u660e\u6279\u6b21\u6548\u5e94\u53ef\u4ee5\u901a\u8fc7sva\u5305\u964d\u4f4e\u3002<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u63a5\u7740\u5c31\u53ef\u4ee5\u7528combat_Expr \u8fd9\u4e2a\u6570\u636e\u505a\u540e\u7eed\u5206\u6790\u5566\uff01<\/span><\/span><\/code><code style=\"box-sizing: border-box;\"><span class=\"code-snippet_outer\" style=\"box-sizing: border-box;\"><span class=\"code-snippet__comment\" style=\"box-sizing: border-box;\">#\u867d\u7136\u4f46\u662f\uff0c\u53ef\u4ee5\u6253\u5f00\u8fd9\u4efd\u6821\u6b63\u540e\u7684\u6570\u636e\u770b\u770b\uff0c\u4f60\u4f1a\u53d1\u73b0\u4f3c\u4e4e\u6709\u4e00\u4e9b\u6570\u636e\u51fa\u73b0\u4e86\u8d1f\u6570\u7684\u60c5\u51b5\uff0c\u800c\u4e14\u672c\u6765\u4e3a\u6574\u6570\u7684count\u6570\u636e\u4e5f\u53d8\u6210\u4e86\u5c0f\u6570\u3002\u8fd9\u6837\u5c31\u4e0d\u80fd\u7528DESeq2\u5305\u8fdb\u884c\u5dee\u5f02\u5206\u6790\u4e86\uff0c\u56e0\u4e3a\u8fd9\u4e2a\u5305\u8981\u6c42\u7684\u57fa\u56e0\u8868\u8fbe\u91cf\u6570\u636e\u5fc5\u987b\u4e3a\u6574\u6570\u7684row_count\u6570\u636e\uff0c\u6240\u4ee5\u540e\u7eed\u5dee\u5f02\u5206\u6790\u53ef\u4ee5\u4f7f\u7528limma\u5305\u6765\u5b8c\u6210\u54e6\uff01<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"display: flex;flex-flow: row;margin: 10px 0% 20px;text-align: left;justify-content: flex-start;box-sizing: border-box;\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;align-self: flex-start;line-height: 0;box-sizing: border-box;\">\n<section style=\"text-align: right;margin: 0px 0% -20px;box-sizing: border-box;\">\n<section style=\"display: inline-block;width: 8px;height: 20px;vertical-align: top;overflow: hidden;border-width: 0px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 241, 224);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<section style=\"text-align: center;box-sizing: border-box;\">\n<section style=\"display: inline-block;width: 16px;height: 20px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 21px 21px 0px 0px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(231, 215, 173);box-sizing: border-box;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;background-color: rgb(245, 241, 224);flex: 100 100 0%;align-self: flex-start;height: auto;border-right: 0px rgb(62, 62, 62);border-top-right-radius: 12px;overflow: hidden;box-shadow: rgb(231, 215, 173) 0px 6px 0px;box-sizing: border-box;\">\n<section style=\"margin: 20px 0% 30px;box-sizing: border-box;\">\n<section style=\"padding: 0px 10px;text-align: justify;box-sizing: border-box;\">\n<p style=\"white-space: normal;margin: 0px;padding: 0px;box-sizing: border-box;\">\u597d\u4e86\uff0c\u672c\u6b21\u5206\u6790\u5230\u8fd9\u91cc\u5c31\u7ed3\u675f\u5566\uff01\u4f46\u662f\u672c\u671f\u6559\u5b66\u8fd8\u6709\u5185\u5bb9\u54e6\uff01\u4e0b\u4e00\u6b21\u5927\u6d77\u54e5\u5c06\u8981\u5206\u4eab\u4f7f\u7528maftools\u5305\u5bf9GISTIC2.0\u7ed3\u679c\u8fdb\u884c\u53ef\u89c6\u5316\u64cd\u4f5c\uff0c\u56de\u89c1\uff01<\/p>\n<p style=\"white-space: normal;margin: 0px;padding: 0px;box-sizing: border-box;\">\uff08\u6700\u540e\u63a8\u8350\u4e00\u4e0b\u5927\u6d77\u54e5\u65b0\u5f00\u53d1\u7684\u96f6\u4ee3\u7801\u4e91\u751f\u4fe1\u5206\u6790\u5de5\u5177\u5e73\u53f0\u5305\u542b\u8d85\u591a\u96f6\u4ee3\u7801\u5c0f\u5de5\u5177\uff0c\u4e0a\u4f20\u6570\u636e\u4e00\u952e\u51fa\u56fe\uff0c\u611f\u5174\u8da3\u7684\u5c0f\u4f19\u4f34\u6b22\u8fce\u6765\u53c2\u89c2<\/p>\n<p style=\"white-space: normal;margin: 0px;padding: 0px;box-sizing: border-box;\"><span style=\"letter-spacing: 0px;box-sizing: border-box;\">\u7f51\u5740 <\/span><span style=\"letter-spacing: 0px;box-sizing: border-box;\">http:\/\/www.biocloudservice.com\/home.html\uff09<\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"border-bottom: 2px solid rgb(0, 150, 136);text-align: left;font-size: 12px;box-sizing: border-box;\">\n<p style=\"margin: 0px;padding: 0px;box-sizing: border-box;\"><a target=\"_blank\" href=\"https:\/\/mp.weixin.qq.com\/s?__biz=MzAwNjE0MDY3MQ==&mid=2650761303&idx=2&sn=6f73471d1e82c56c0b2160d0fcd32d53&scene=21#wechat_redirect\" textvalue=\"\" linktype=\"image\" imgurl=\"https:\/\/mmbiz.qpic.cn\/mmbiz_jpg\/YHGRXkSxjSSYqN0u6bwwXzLCBdlX9BXOYJyjlsib6bQ74Wibtria9gSC4sqocafb5YBQcZWdQRrtP2Xo7vaFWaecA\/0?wx_fmt=jpeg\" imgdata=\"[object Object]\" tab=\"innerlink\" data-linktype=\"1\" rel=\"noopener\"><span class=\"js_jump_icon h5_image_link\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.35083798882681566\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-09-09_\u300c\u8f6c\u300d\u53ea\u970010\u5206\u949f\uff0c\u641e\u5b9a\u4e00\u5957\u6d41\u7a0b\uff0cGEO\u6570\u636e\u5408\u5e76\u5230\u53bb\u9664\u6279\u6b21\u6548\u5e94\/9_ocafb5YBQcZWdQRrtP2Xo7vaFWaecA.jpg\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_jpg\/YHGRXkSxjSSYqN0u6bwwXzLCBdlX9BXOYJyjlsib6bQ74Wibtria9gSC4sqocafb5YBQcZWdQRrtP2Xo7vaFWaecA\/640?wx_fmt=jpeg'\" 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