<\/title><br \/>\n<meta charset=\"utf-8\"><br \/>\n<meta name=\"viewport\" content=\"width=device-width,initial-scale=1.0,maximum-scale=1.0,user-scalable=0,viewport-fit=cover\"><\/p>\n<style>\n*{margin:0;padding:0}html{-ms-text-size-adjust:100%;-webkit-text-size-adjust:100%;line-height:1.6}img{z-index:999;position:relative;max-width:100%;margin:10px 0;}body{letter-spacing:.034em}h1,h2,h3,h4,h5,h6{font-weight:400;font-size:16px}a{color:#576b95;text-decoration:none;-webkit-tap-highlight-color:rgba(0,0,0,0)}td,th{word-wrap:break-word;padding:5px 10px;border:1px solid #DDD;}table{margin-bottom:10px;border-collapse:collapse;display:table;width:100%!important;}.appmsg_skin_default .rich_media_area_primary{background-color:#fff}.appmsg_skin_default .rich_media_area_primary .weui-loadmore_line .weui-loadmore__tips{background-color:#fff}.rich_media_area_primary{padding:20px 16px 12px;background-color:#fafafa}@media (max-width:375px){.rich_media_area_primary{padding:20px 60px 15px 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style=\"margin-top: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"\" powered-by=\"xiumi.us\">\n<section style=\"text-align: center;\">\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\"><strong><span style=\"font-size: 15px;\">\u751f\u4fe1\u4ebaR\u8bed\u8a00\u5b66\u4e60\u5fc5\u5907<\/span><\/strong><\/span><\/p>\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\"><strong><span style=\"font-size: 15px;\">\u7acb\u523b\u62e5\u6709\u4e00\u4e2aRstudio\u8d26\u53f7<\/span><\/strong><\/span><\/p>\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\"><strong><span style=\"font-size: 15px;\">\u5f00\u542f\u5347\u7ea7\u6a21\u5f0f\u5427<\/span><\/strong><\/span><\/p>\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"color: rgb(255, 129, 36);font-size: 12px;letter-spacing: 0.5px;\">\uff0856\u7ebf\u7a0b\uff0c256G\u5185\u5b58\uff0c\u4e2a\u4eba\u5b58\u50a81T\uff09<\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: 29.9652%;align-self: flex-start;flex: 0 0 auto;height: auto;max-width: 29.9652% !important;\">\n<section style=\"margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"text-align: center;line-height: 0;\">\n<section>\n<section style=\"display: inline-block;vertical-align: middle;\" powered-by=\"xiumi.us\">\n<section style=\"line-height: 0;\">\n<section style=\"width: 111px;\" powered-by=\"xiumi.us\">\n<section style=\"line-height: 1.75em;text-indent: 0em;\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;height: auto;width: 111px;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"1\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_GBhsibRAgNiaQsH4ichdP9ibEhHMFA-120.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyL6u7wJswOp8vtpzGp6vYngnlT6jiavu08Bvp2iblzGf3IkoBD9NGBhsibRAgNiaQsH4ichdP9ibEhHMFA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"400\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<section style=\"display: contents;\" powered-by=\"xiumi.us\">\n<section style=\"display: contents;\">\n<section style=\"display: contents;\">\n<section style=\"height: 0px;overflow: hidden;\"><span style=\"font-size: 14px;letter-spacing: 0.578px;caret-color: red;\"> <\/span><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<h2 style=\"text-align: center;\"><em><span style=\"font-size: 20px;\"><strong><span style=\"font-family: \u9ed1\u4f53;\">\u53cc\u66f2\u7ebf\u706b\u5c71\u56fe<\/span><\/strong><\/span><\/em><strong><span style=\"mso-spacerun:'yes';font-family:Arial;mso-fareast-font-family:\u9ed1\u4f53;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\"><o:p><\/o:p><\/span><\/strong><\/h2>\n<p><span style=\"font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;font-size: 14px;\">\u6700\u8fd1\u5728\u5f88\u591a\u7684\u6587\u7ae0\u4e2d\u51fa\u73b0\u4e86\u4e0b\u56fe\u7c7b\u4f3c\u7684\u65b0\u578b\u706b\u5c71\u56fe\uff0c\u5176\u5b9e\u539f\u7406\u5c31\u662f\uff0c\u5206\u522b\u4ee5\u539f\u6765\u7684\u7684\u9608\u503c\u7ebf\u4e3a\u57fa\u51c6\uff0c\u753b\u4e24\u4e2a\u539f\u59cb\u51fd\u6570\u4e3ay=1\/x\u7684\u7684\u66f2\u7ebf\u3002\u8fd9\u6837\u5bf9\u57fa\u56e0\u8fdb\u884c\u5206\u7c7b\uff0c\u6709\u5229\u4e8e\u7b5b\u9009\u5dee\u5f02\u66f4\u663e\u8457\u7684\u57fa\u56e0\u3002\u56e0\u6b64\u56fe\u5f62\u4e5f\u53d8\u7684\u7f8e\u89c2\u3002<\/span><span style=\"mso-spacerun:'yes';font-family:Calibri;mso-fareast-font-family:\u5b8b\u4f53;mso-bidi-font-family:'Times New Roman';font-size:10.5000pt;mso-font-kerning:1.0000pt;\"><o:p><\/o:p><\/span><\/p>\n<p><strong><span style=\"font-size: 12pt;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><\/span><\/strong><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"1.036764705882353\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_ziaBTRhIxibyCficgA6l6HjZlGPmEQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqU1T9opXP2a99wiby3b2njbVo6l1gziaBTRhIxibyCficgA6l6HjZlGPmEQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"544\" style=\"\" data-recalc-dims=\"1\"><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<h2 style=\"text-align: center;\"><em><strong><span style=\"mso-spacerun:'yes';font-family:\u9ed1\u4f53;mso-ascii-font-family:Arial;mso-hansi-font-family:Arial;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\">\u5b89\u88c5\u76f8\u5e94\u7684\u5305\u5e76\u52a0\u8f7d<\/span><\/strong><\/em><strong><span style=\"mso-spacerun:'yes';font-family:Arial;mso-fareast-font-family:\u9ed1\u4f53;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\"><o:p><\/o:p><\/span><\/strong><\/h2>\n<p style=\"text-align: center;\"><br \/><\/p>\n<\/section>\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\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<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=\"shell\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span>\u76f8\u5173R\u5305\u8f7d\u5165\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">library(dplyr)<\/span><\/code><code><span class=\"code-snippet_outer\">library(ggplot2)<\/span><\/code><code><span class=\"code-snippet_outer\">library(ggrepel)<\/span><\/code><code><span class=\"code-snippet_outer\">library(patchwork)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span>\u672c\u5730\u6d4b\u8bd5\u6570\u636e\u8bfb\u5165\uff0c\u5177\u4f53\u6570\u636e\u89c1\u9644\u4ef6<\/span><\/code><code><span class=\"code-snippet_outer\">df <- read.csv('.\/test.xls',header = T,sep = \"t\")<\/span><\/code><code><span class=\"code-snippet_outer\">head(df)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span><span class=\"code-snippet__comment\">#\u7b5b\u9009\u9608\u503c\u786e\u5b9a\uff0c\u4e00\u822c\u9608\u503c\u662fp\uff1c0.05\uff0c|log2FC|\uff1e1<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">pvalue = 0.05<\/span><\/code><code><span class=\"code-snippet_outer\">log2FC = 1<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span>\u6839\u636e\u9608\u503c\u6dfb\u52a0\u4e0a\u4e0b\u8c03\u5206\u7ec4\u6807\u7b7e\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">df$<\/span>group <- case_when(<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\"> df$<\/span>log2FC > log2FC & df<span class=\"code-snippet__variable\">$Pvalue<\/span> < pvalue ~ <span class=\"code-snippet__string\">\"up\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\"> df$<\/span>log2FC < -log2FC & df<span class=\"code-snippet__variable\">$Pvalue<\/span> < pvalue ~ <span class=\"code-snippet__string\">\"down\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\"> TRUE ~ 'none'<\/span><\/code><code><span class=\"code-snippet_outer\">)<\/span><\/code><code><span class=\"code-snippet_outer\">head(df)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span>\u8f6c\u6362\u4e3a\u56e0\u5b50\u6307\u5b9a\u7ed8\u56fe\u987a\u5e8f\uff1b<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">df$<\/span><span class=\"code-snippet__string\">'-log10(pvalue)'<\/span> <- -log10(df<span class=\"code-snippet__variable\">$Pvalue<\/span>) <span class=\"code-snippet__comment\">#\u65b0\u589e-log10p\u5217<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">df$<\/span>group <- factor(df<span class=\"code-snippet__variable\">$group<\/span>, levels = c(<span class=\"code-snippet__string\">\"up\"<\/span>,<span class=\"code-snippet__string\">\"down\"<\/span>,<span class=\"code-snippet__string\">\"none\"<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span>ggplot2\u5efa\u7acb\u6620\u5c04\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">p <- ggplot(data = df,<\/span><\/code><code><span class=\"code-snippet_outer\"> aes(x = log2FC, y = `-log10(pvalue)`, color = group)) + #\u5efa\u7acb\u6620\u5c04<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_point(size = 2.2) #\u7ed8\u5236\u6563\u70b9<\/span><\/code><code><span class=\"code-snippet_outer\"> p<\/span><\/code><\/pre>\n<\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p><span style=\"display: none;line-height: 0px;\">\u200d<\/span><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.703757225433526\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_jXLxh6jzyHvLPVBsBUduHueLnmWN9Q.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqwhRYr2R29HyMFmNe4CmgWqCTjXLxh6jzyHvLPVBsBUduHueLnmWN9Q\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"692\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p><span style=\"font-size: 14px;\"><\/span><\/p>\n<p style=\"text-align: center;white-space: normal;font-size: 16px;\"><o:p><\/o:p><\/p>\n<\/section>\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\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=\"perl\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u6839\u636e\u81ea\u5df1\u7684\u9700\u6c42\u53ef\u4ee5\u8c03\u6574\u4e0b\u5217\u53c2\u6570\uff0c\u8fdb\u884c\u7ed8\u56fe\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">p1 <- p +<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_x_continuous(limits = c(-<span class=\"code-snippet__number\">7<\/span>, <span class=\"code-snippet__number\">7<\/span>), breaks = se<span class=\"code-snippet__string\">q(-7, 7, by = 2)<\/span>)+<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_y_continuous(expand = expansion(add = c(<span class=\"code-snippet__number\">0<\/span>.<span class=\"code-snippet__number\">5<\/span>, <span class=\"code-snippet__number\">0<\/span>)),<\/span><\/code><code><span class=\"code-snippet_outer\"> limits = c(<span class=\"code-snippet__number\">0<\/span>, <span class=\"code-snippet__number\">10<\/span>), breaks = se<span class=\"code-snippet__string\">q(0, 10, by = 5)<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<\/section>\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6763005780346821\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_WibYaPEjL48tKzlO01c8oHEtdEDAoA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqLPibsib5NaHxSuIhyFH1bvQ33UBWibYaPEjL48tKzlO01c8oHEtdEDAoA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"692\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p><span style=\"font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;font-size: 14px;\"><span style=\"font-size: 14px;font-family: \u5b8b\u4f53;\"><\/span><\/span><\/p>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p><br \/><\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"objectivec\"><code><span class=\"code-snippet_outer\">#\u81ea\u5b9a\u4e49\u989c\u8272\u4e0e\u4e3b\u9898\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">mycol <- c(\"#EB4232\",\"#2DB2EB\",\"#d8d8d8\")<\/span><\/code><code><span class=\"code-snippet_outer\">mytheme <- theme_classic() +<\/span><\/code><code><span class=\"code-snippet_outer\"> theme(<\/span><\/code><code><span class=\"code-snippet_outer\"> axis.title = element_text(size = 15),<\/span><\/code><code><span class=\"code-snippet_outer\"> axis.text = element_text(size = 14),<\/span><\/code><code><span class=\"code-snippet_outer\"> legend.text = element_text(size = 14)<\/span><\/code><code><span class=\"code-snippet_outer\"> )<\/span><\/code><code><span class=\"code-snippet_outer\">p2 <- p1 +<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_colour_manual(name = \"\", values = alpha(mycol, 0.7)) +<\/span><\/code><code><span class=\"code-snippet_outer\"> mytheme<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: center;\"><br \/><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6893063583815029\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_ibW4heHVCicsDmibDZlx4bFzUfx6Yw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqLjtBohvBcJGwBBW2Y90qDsoAn7cibW4heHVCicsDmibDZlx4bFzUfx6Yw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"692\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<p style=\"text-align: center;\"><br \/><\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"xml\"><code><span class=\"code-snippet_outer\">#\u6dfb\u52a0\u9608\u503c\u8f85\u52a9\u7ebf<\/span><\/code><code><span class=\"code-snippet_outer\">p3 <- p2 +<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_hline(yintercept = c(-log10(pvalue)),size = 0.7,color = \"black\",lty = \"dashed\") + #\u6c34\u5e73\u9608\u503c\u7ebf<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_vline(xintercept = c(-log2FC, log2FC),size = 0.7,color = \"black\",lty = \"dashed\") #\u5782\u76f4\u9608\u503c\u7ebf<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: center;\"><br \/><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6720257234726688\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_aDAFfPiaA07U9O34ChXgFDaGX1ugCQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqePstQZVK7GMdQm36v1GibH5hPhaDAFfPiaA07U9O34ChXgFDaGX1ugCQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"622\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<h2 style=\"text-align: center;\"><em><strong><span style=\"mso-spacerun:'yes';font-family:\u9ed1\u4f53;mso-ascii-font-family:Arial;mso-hansi-font-family:Arial;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\">\u6dfb\u52a0\u53cc\u66f2\u7ebf<\/span><\/strong><\/em><strong><span style=\"mso-spacerun:'yes';font-family:\u9ed1\u4f53;mso-ascii-font-family:Arial;mso-hansi-font-family:Arial;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\"><o:p><\/o:p><\/span><\/strong><\/h2>\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<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<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"php\"><code><span class=\"code-snippet_outer\">#\u6839\u636e\u53cd\u6bd4\u4f8b\u51fd\u6570 y = 1\/X\u548c\u81ea\u5df1\u8bbe\u5b9a\u7684\u9608\u503c\u81ea\u5b9a\u4e49\u53cc\u66f2\u7ebf\u51fd\u6570<\/span><\/code><code><span class=\"code-snippet_outer\">f <- function(x){<\/span><\/code><code><span class=\"code-snippet_outer\"> inputx <- seq(0.0001, x, by = 0.0001)<\/span><\/code><code><span class=\"code-snippet_outer\"> y <- 1\/(inputx) + (-log10(pvalue))<\/span><\/code><code><span class=\"code-snippet_outer\"> dff <- rbind(data.frame(x = inputx + log2FC, y = y),<\/span><\/code><code><span class=\"code-snippet_outer\"> data.frame(x = -(inputx + log2FC), y = y))<\/span><\/code><code><span class=\"code-snippet_outer\"> return(dff)<\/span><\/code><code><span class=\"code-snippet_outer\">}<\/span><\/code><code><span class=\"code-snippet_outer\">#\u6839\u636e\u51fd\u6570\u751f\u6210\u6240\u9700\u7684\u66f2\u7ebf\u6570\u7ec4\u5750\u6807\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">dff_curve <- f(2)<\/span><\/code><code><span class=\"code-snippet_outer\">head(dff_curve)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u9700\u8981\u65b0\u589e\u66f2\u7ebf\u6570\u503c\u5217\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">##\u6bcf\u5217log2FoldChange\u503c\u5728\u66f2\u7ebf\u4e0a\u5bf9\u5e94\u7684y\u8f74\u5750\u6807\uff1b<\/span><\/code><code><span class=\"code-snippet_outer\">df$curve_y <- case_when(<\/span><\/code><code><span class=\"code-snippet_outer\"> df$log2FC > 0 ~ 1\/(df$log2FC-log2FC) + (-log10(pvalue)),<\/span><\/code><code><span class=\"code-snippet_outer\"> df$log2FC <= 0 ~ 1\/(-df$log2FC-log2FC) + (-log10(pvalue))<\/span><\/code><code><span class=\"code-snippet_outer\">)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u8ddf\u524d\u6587\u8bb2\u8ff0\u7684\u4e00\u6837\u6839\u636e\u66f2\u7ebf\u65b0\u589e\u4e0a\u4e0b\u8c03\u5206\u7ec4\u6807\u7b7e\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">df$group2 <- case_when(<\/span><\/code><code><span class=\"code-snippet_outer\"> df$`-log10(pvalue)` > df$curve_y & df$log2FC >= log2FC ~ 'up',<\/span><\/code><code><span class=\"code-snippet_outer\"> df$`-log10(pvalue)` > df$curve_y & df$log2FC <= -log2FC ~ 'down',<\/span><\/code><code><span class=\"code-snippet_outer\"> TRUE ~ 'none'<\/span><\/code><code><span class=\"code-snippet_outer\">)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u7ed8\u5236\u65b0\u53cc\u66f2\u7ebf\u9608\u503c\u706b\u5c71\u56fe\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">df$group2 <- factor(df$group2, levels = c(\"up\",\"down\",\"none\")) #\u6307\u5b9a\u987a\u5e8f<\/span><\/code><code><span class=\"code-snippet_outer\">mycol2 <- c(\"#F8B606\",\"#4A1985\",\"#d8d8d8\")<\/span><\/code><code><span class=\"code-snippet_outer\">p4 <- ggplot(data = df,<\/span><\/code><code><span class=\"code-snippet_outer\"> aes(x = log2FC, y = `-log10(pvalue)`, color = group2)) + #\u4f7f\u7528\u65b0\u7684\u5206\u7ec4<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_point(size = 2.2) +<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_x_continuous(limits = c(-7, 7), breaks = seq(-7, 7, by = 2)) +<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_y_continuous(expand = expansion(add = c(0.5, 0)),<\/span><\/code><code><span class=\"code-snippet_outer\"> limits = c(0, 10), breaks = seq(0, 10, by = 5)) +<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_colour_manual(name = \"\", values = alpha(mycol2, 0.7)) +<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_line(data = dff_curve,<\/span><\/code><code><span class=\"code-snippet_outer\"> aes(x = x, y = y), #\u66f2\u7ebf\u5750\u6807<\/span><\/code><code><span class=\"code-snippet_outer\"> color = \"black\",lty = \"dashed\", size = 0.7) +<\/span><\/code><code><span class=\"code-snippet_outer\"> mytheme<\/span><\/code><code><span class=\"code-snippet_outer\">p4<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6791907514450867\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_eOibKCe9wwOtGw2bpX7jciaWPpCxrA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqIYkw181L5Grvuhddib9XFJ8ss7NeOibKCe9wwOtGw2bpX7jciaWPpCxrA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"692\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<h2 style=\"text-align: center;\"><em><strong><span style=\"mso-spacerun:'yes';font-family:\u9ed1\u4f53;mso-ascii-font-family:Arial;mso-hansi-font-family:Arial;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\">\u6dfb\u52a0\u6807\u7b7e<\/span><\/strong><\/em><strong><span style=\"mso-spacerun:'yes';font-family:\u9ed1\u4f53;mso-ascii-font-family:Arial;mso-hansi-font-family:Arial;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\"><o:p><\/o:p><\/span><\/strong><\/h2>\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=\"xml\"><code><span class=\"code-snippet_outer\">#\u7b5b\u9009\u663e\u8457\u6027top10\u6807\u7b7e\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">top10 <- filter(df, group2 != \"none\") %>%<\/span><\/code><code><span class=\"code-snippet_outer\"> distinct(GeneName, .keep_all = T) %>%<\/span><\/code><code><span class=\"code-snippet_outer\"> top_n(10, abs(log2FC))<\/span><\/code><code><span class=\"code-snippet_outer\">p5 <- p4 +<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_text_repel(data = top10,<\/span><\/code><code><span class=\"code-snippet_outer\"> aes(x = log2FC, y = `-log10(pvalue)`, label = GeneName),<\/span><\/code><code><span class=\"code-snippet_outer\"> force = 80, color = 'black', size = 3.2,<\/span><\/code><code><span class=\"code-snippet_outer\"> point.padding = 0.5, hjust = 0.5,<\/span><\/code><code><span class=\"code-snippet_outer\"> arrow = arrow(length = unit(0.02, \"npc\"),<\/span><\/code><code><span class=\"code-snippet_outer\"> type = \"open\", ends = \"last\"),<\/span><\/code><code><span class=\"code-snippet_outer\"> segment.color=\"black\",<\/span><\/code><code><span class=\"code-snippet_outer\"> segment.size = 0.3,<\/span><\/code><code><span class=\"code-snippet_outer\"> nudge_x = 0,<\/span><\/code><code><span class=\"code-snippet_outer\"> nudge_y = 1)<\/span><\/code><code><span class=\"code-snippet_outer\">p5<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6820809248554913\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/8_Pt1iadiapD7UWgticZubztKEpnsu7Q.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqS9Hbic5JtGyibxzNjJxLC2fJ9Qj5HPt1iadiapD7UWgticZubztKEpnsu7Q\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"692\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p><br \/><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\u8865\u5145\u5173\u4e8e\u706b\u5c71\u56fe\u5dee\u5f02\u7b5b\u9009\u7684\u7edf\u8ba1\u5b66\u610f\u4e49<\/span><span style=\"font-size: 14px;\">\uff1a<\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"text-decoration: underline;\"><strong><span style=\"text-decoration: underline;font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;color: rgb(0, 122, 170);\">1\u3001\u4ec0\u4e48\u662ffold change?<\/span><\/strong><\/span><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\"><\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\">\u5dee\u5f02\u500d\u6570\uff0c\u7b80\u5355\u6765\u8bf4\u5c31\u662f\u57fa\u56e0\u5728\u4e00\u7ec4\u6837\u54c1\u4e2d\u7684\u8868\u8fbe\u503c\u7684\u5747\u503c\u9664\u4ee5\u5176\u5728\u53e6\u4e00\u7ec4\u6837\u54c1\u4e2d\u7684\u8868\u8fbe\u503c\u7684\u5747\u503c\u3002\u6240\u4ee5\u706b\u5c71\u56fe\u53ea\u9002\u5408\u5c55\u793a\u4e24\u7ec4\u6837\u54c1\u4e4b\u95f4\u7684\u6bd4\u8f83\u3002<o:p><\/o:p><\/span><\/p>\n<p><span style=\"text-decoration: underline;\"><strong><span style=\"text-decoration: underline;font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;color: rgb(0, 122, 170);\">2\u3001\u4e3a\u4ec0\u4e48\u8981\u505aLog 2\u8f6c\u6362\uff1f<\/span><\/strong><\/span><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\"><\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\u7ed8\u5236\u5230\u56fe\u4e2d\u65f6\uff0c\u4e0a\u8c03\u5360\u7684\u7a7a\u95f4\u591a\uff0c\u4e0b\u8c03\u5360\u7684\u7a7a\u95f4\u5c11\uff0c\u5c55\u793a\u8d77\u6765\u4e0d\u65b9\u4fbf\u3002\u6240\u4ee5\u4e00\u822c\u4f1a\u505a<\/span>Log 2<span style=\"font-size: 14px;\">\u8f6c\u6362\u3002\u9ed8\u8ba4\u6211\u4eec\u90fd\u4f1a\u7528\u4e24\u500d\u5dee\u5f02 \uff08<\/span><span style=\"font-size: 14px;\">fold change == 2 | 0.5<\/span><span style=\"font-size: 14px;\">\uff09\u505a\u4e3a\u4e00\u4e2a\u7b5b\u9009\u6807\u51c6\u3002<\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"text-decoration: underline;\"><strong><span style=\"text-decoration: underline;font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;color: rgb(0, 122, 170);\">3\u3001P-value\u90fd\u6bd4\u8f83\u719f\u6089<\/span><\/strong><\/span><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\uff0c\u7edf\u8ba1\u68c0\u9a8c\u83b7\u5f97\u7684\u662f\u5426\u7edf\u8ba1\u5dee\u5f02\u663e\u8457\u7684\u4e00\u4e2a\u8861\u91cf\u503c\uff0c\u7ea6\u5b9a\u6210\u4fd7\u7684P-value<0.05\u4e3a\u7edf\u8ba1\u68c0\u9a8c\u663e\u8457\u7684\u5e38\u89c4\u6807\u51c6\u3002<\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"text-decoration: underline;\"><strong><span style=\"text-decoration: underline;font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;color: rgb(0, 122, 170);\">4\u3001\u4ec0\u4e48\u662fadjusted P-value?<\/span><\/strong><\/span><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\">\u505a\u5dee\u5f02\u57fa\u56e0\u68c0\u6d4b\u65f6\uff0c\u8981\u5bf9\u6210\u5343\u4e0a\u4e07\u7684\u57fa\u56e0\u5206\u522b\u505a\u5dee\u5f02\u7edf\u8ba1\u68c0\u9a8c\u3002\u7edf\u8ba1\u5b66\u5bb6\u8ba4\u4e3a\u505a\u8fd9\u4e48\u591a\u6b21\u7684\u68c0\u9a8c\uff0c\u672c\u8eab\u5c31\u4f1a\u5f15\u5165\u5047\u9633\u6027\u7ed3\u679c\uff0c\u9700\u8981\u505a\u4e00\u4e2a\u591a\u91cd\u5047\u8bbe\u68c0\u9a8c\u6821\u6b63\u3002<o:p><\/o:p><\/span><\/p>\n<p><span style=\"text-decoration: underline;\"><strong><span style=\"text-decoration: underline;font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;color: rgb(0, 122, 170);\">5\u3001\u4e3a\u4ec0\u4e48\u505a-Log 10\u8f6c\u6362\u5462\uff1f<\/span><\/strong><\/span><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\"><\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\u56e0\u4e3a<\/span>FDR<span style=\"font-size: 14px;\">\u503c\u662f<\/span><span style=\"font-size: 14px;\">0-1<\/span><span style=\"font-size: 14px;\">\u4e4b\u95f4\uff0c\u6570\u503c\u8d8a\u5c0f\u8d8a\u662f\u7edf\u8ba1\u663e\u8457\uff0c\u4e5f\u8d8a\u662f\u6211\u4eec\u5173\u6ce8\u7684\u3002<\/span><span style=\"font-size: 14px;\">-Log 10 (adjusted P-value)<\/span><span style=\"font-size: 14px;\">\u8f6c\u6362\u540e\u6b63\u597d\u662f\u53cd\u4e86\u591a\u6765\uff0c\u6570\u503c\u8d8a\u5927\u8d8a\u663e\u8457\uff0c\u800c\u4e14\u4ee5<\/span><span style=\"font-size: 14px;\">10<\/span><span style=\"font-size: 14px;\">\u4e3a\u5e95\u5f88\u5bb9\u6613\u6362\u7b97\u56de\u53bb\u3002<\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\u5982\u679c\u9047\u5230\u4e0d\u61c2\u7684\u4e5f\u53ef\u4ee5\u501f\u52a9\u7ebf\u4e0a\u7684\u4e91\u5e73\u53f0\u54e6\uff5e<\/span>http:\/\/www.biocloudservice.com\/home.html<o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\u597d\u4e86\u4eca\u5929\u7684\u706b\u5c71\u56fe\u5c31\u8bb2\u5230\u8fd9\u91cc<\/span><span style=\"font-size: 14px;\">\uff0c\u6b22\u8fce\u5927\u5bb6\u6709\u95ee\u9898\u4e0e\u5c0f\u679c\u4e00\u8d77\u8ba8\u8bba\u54e6\uff5e<\/span><\/span><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<\/section>\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><span style=\"color: rgb(217, 33, 66);\"><span style=\"font-size: 10.5pt;font-family: \u5fae\u8f6f\u96c5\u9ed1;\">\u5176\u4ed6<\/span><span style=\"font-size: 10.5pt;font-family: \u5fae\u8f6f\u96c5\u9ed1;\">\u76f8\u5173\u5206\u6790\u5185\u5bb9\uff0c\u4f8b\u5982\u9884\u6d4b\u80bf\u7624\u6837\u672c\u836f\u7269\u654f\u611f\u6027\u5206\u6790(http:\/\/www.biocloudservice.com\/712\/712.php),\u9884\u6d4b\u67d0\u6837\u672c\u4e9a\u578b\u5bf9\u514d\u75ab\u6cbb\u7597\u7684\u53cd\u5e94(http:\/\/www.biocloudservice.com\/292\/292.php)\uff0c\u5355\u6837\u672c\u5bcc\u96c6\u7b97\u6cd5\u5206\u6790\u514d\u75ab\u6d78\u6da6\u4e30\u5ea6(http:\/\/www.biocloudservice.com\/106\/106.php)\uff0c\u8ba1\u7b9764\u79cd\u514d\u75ab\u7ec6\u80de\u76f8\u5bf9\u542b\u91cf(http:\/\/www.biocloudservice.com\/107\/107.php)\u7b49\u90fd\u53ef\u4ee5\u7528\u672c\u516c\u53f8\u65b0\u5f00\u53d1\u7684\u96f6\u4ee3\u7801\u4e91\u5e73\u53f0\u751f\u4fe1\u5206\u6790\u5c0f\u5de5\u5177\uff0c\u4e00\u952e\u5b8c\u6210\u8be5\u5206\u6790\u5965\uff0c\u611f\u5174\u8da3\u7684\u5c0f\u4f19\u4f34\u6b22\u8fce\u6765\u5c1d\u8bd5\u5965\uff0c\u7f51\u5740\uff1ahttp:\/\/www.biocloudservice.com\/home.html\u3002<\/span><\/span><span style=\"color: rgb(217, 33, 66);font-size: 10.5pt;font-family: \u5fae\u8f6f\u96c5\u9ed1;\"><\/span><span style=\"mso-spacerun:"yes";font-family:\u5fae\u8f6f\u96c5\u9ed1;font-size:10.5000pt;mso-font-kerning:1.0000pt;\">\u4eca\u5929\u5c0f\u679c\u7684\u5206\u4eab\u5c31\u5230\u8fd9\u91cc\uff0c\u4e0b\u671f\u5728\u89c1\u5965\u3002<\/span><span style=\"text-align: center;letter-spacing: 0.034em;\"><\/span><\/p>\n<p><span style=\"mso-spacerun:"yes";font-family:\u5fae\u8f6f\u96c5\u9ed1;font-size:10.5000pt;mso-font-kerning:1.0000pt;\"><br \/><\/span><\/p>\n<section style=\"margin-bottom: 0px;outline: 0px;font-family: system-ui, -apple-system, BlinkMacSystemFont, "Helvetica Neue", "PingFang SC", "Hiragino Sans GB", "Microsoft YaHei UI", "Microsoft YaHei", Arial, sans-serif;font-size: 16px;white-space: normal;text-align: left;background-color: rgb(255, 255, 255);letter-spacing: 0.578px;visibility: visible;\">\n<section style=\"outline: 0px;visibility: visible;\">\n<section style=\"outline: 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style=\"margin-top: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"\" powered-by=\"xiumi.us\">\n<section style=\"text-align: center;\">\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\"><strong><span style=\"font-size: 15px;\">\u751f\u4fe1\u4ebaR\u8bed\u8a00\u5b66\u4e60\u5fc5\u5907<\/span><\/strong><\/span><\/p>\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\"><strong><span style=\"font-size: 15px;\">\u7acb\u523b\u62e5\u6709\u4e00\u4e2aRstudio\u8d26\u53f7<\/span><\/strong><\/span><\/p>\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\"><strong><span style=\"font-size: 15px;\">\u5f00\u542f\u5347\u7ea7\u6a21\u5f0f\u5427<\/span><\/strong><\/span><\/p>\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"color: rgb(255, 129, 36);font-size: 12px;letter-spacing: 0.5px;\">\uff0856\u7ebf\u7a0b\uff0c256G\u5185\u5b58\uff0c\u4e2a\u4eba\u5b58\u50a81T\uff09<\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: 29.9652%;align-self: flex-start;flex: 0 0 auto;height: auto;max-width: 29.9652% !important;\">\n<section style=\"margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"text-align: center;line-height: 0;\">\n<section>\n<section style=\"display: inline-block;vertical-align: middle;\" powered-by=\"xiumi.us\">\n<section style=\"line-height: 0;\">\n<section style=\"width: 111px;\" powered-by=\"xiumi.us\">\n<section style=\"line-height: 1.75em;text-indent: 0em;\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;height: auto;width: 111px;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"1\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_GBhsibRAgNiaQsH4ichdP9ibEhHMFA-120.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyL6u7wJswOp8vtpzGp6vYngnlT6jiavu08Bvp2iblzGf3IkoBD9NGBhsibRAgNiaQsH4ichdP9ibEhHMFA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"400\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<section style=\"display: contents;\" powered-by=\"xiumi.us\">\n<section style=\"display: contents;\">\n<section style=\"display: contents;\">\n<section style=\"height: 0px;overflow: hidden;\"><span style=\"font-size: 14px;letter-spacing: 0.578px;caret-color: red;\"> <\/span><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<h2 style=\"text-align: center;\"><em><span style=\"font-size: 20px;\"><strong><span style=\"font-family: \u9ed1\u4f53;\">\u53cc\u66f2\u7ebf\u706b\u5c71\u56fe<\/span><\/strong><\/span><\/em><strong><span style=\"mso-spacerun:'yes';font-family:Arial;mso-fareast-font-family:\u9ed1\u4f53;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\"><o:p><\/o:p><\/span><\/strong><\/h2>\n<p><span style=\"font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;font-size: 14px;\">\u6700\u8fd1\u5728\u5f88\u591a\u7684\u6587\u7ae0\u4e2d\u51fa\u73b0\u4e86\u4e0b\u56fe\u7c7b\u4f3c\u7684\u65b0\u578b\u706b\u5c71\u56fe\uff0c\u5176\u5b9e\u539f\u7406\u5c31\u662f\uff0c\u5206\u522b\u4ee5\u539f\u6765\u7684\u7684\u9608\u503c\u7ebf\u4e3a\u57fa\u51c6\uff0c\u753b\u4e24\u4e2a\u539f\u59cb\u51fd\u6570\u4e3ay=1\/x\u7684\u7684\u66f2\u7ebf\u3002\u8fd9\u6837\u5bf9\u57fa\u56e0\u8fdb\u884c\u5206\u7c7b\uff0c\u6709\u5229\u4e8e\u7b5b\u9009\u5dee\u5f02\u66f4\u663e\u8457\u7684\u57fa\u56e0\u3002\u56e0\u6b64\u56fe\u5f62\u4e5f\u53d8\u7684\u7f8e\u89c2\u3002<\/span><span style=\"mso-spacerun:'yes';font-family:Calibri;mso-fareast-font-family:\u5b8b\u4f53;mso-bidi-font-family:'Times New Roman';font-size:10.5000pt;mso-font-kerning:1.0000pt;\"><o:p><\/o:p><\/span><\/p>\n<p><strong><span style=\"font-size: 12pt;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><\/span><\/strong><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"1.036764705882353\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_ziaBTRhIxibyCficgA6l6HjZlGPmEQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqU1T9opXP2a99wiby3b2njbVo6l1gziaBTRhIxibyCficgA6l6HjZlGPmEQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"544\" style=\"\" data-recalc-dims=\"1\"><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<h2 style=\"text-align: center;\"><em><strong><span style=\"mso-spacerun:'yes';font-family:\u9ed1\u4f53;mso-ascii-font-family:Arial;mso-hansi-font-family:Arial;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\">\u5b89\u88c5\u76f8\u5e94\u7684\u5305\u5e76\u52a0\u8f7d<\/span><\/strong><\/em><strong><span style=\"mso-spacerun:'yes';font-family:Arial;mso-fareast-font-family:\u9ed1\u4f53;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\"><o:p><\/o:p><\/span><\/strong><\/h2>\n<p style=\"text-align: center;\"><br \/><\/p>\n<\/section>\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\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<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=\"shell\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span>\u76f8\u5173R\u5305\u8f7d\u5165\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">library(dplyr)<\/span><\/code><code><span class=\"code-snippet_outer\">library(ggplot2)<\/span><\/code><code><span class=\"code-snippet_outer\">library(ggrepel)<\/span><\/code><code><span class=\"code-snippet_outer\">library(patchwork)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span>\u672c\u5730\u6d4b\u8bd5\u6570\u636e\u8bfb\u5165\uff0c\u5177\u4f53\u6570\u636e\u89c1\u9644\u4ef6<\/span><\/code><code><span class=\"code-snippet_outer\">df <- read.csv('.\/test.xls',header = T,sep = \"t\")<\/span><\/code><code><span class=\"code-snippet_outer\">head(df)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span><span class=\"code-snippet__comment\">#\u7b5b\u9009\u9608\u503c\u786e\u5b9a\uff0c\u4e00\u822c\u9608\u503c\u662fp\uff1c0.05\uff0c|log2FC|\uff1e1<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">pvalue = 0.05<\/span><\/code><code><span class=\"code-snippet_outer\">log2FC = 1<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span>\u6839\u636e\u9608\u503c\u6dfb\u52a0\u4e0a\u4e0b\u8c03\u5206\u7ec4\u6807\u7b7e\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">df$<\/span>group <- case_when(<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\"> df$<\/span>log2FC > log2FC & df<span class=\"code-snippet__variable\">$Pvalue<\/span> < pvalue ~ <span class=\"code-snippet__string\">\"up\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\"> df$<\/span>log2FC < -log2FC & df<span class=\"code-snippet__variable\">$Pvalue<\/span> < pvalue ~ <span class=\"code-snippet__string\">\"down\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\"> TRUE ~ 'none'<\/span><\/code><code><span class=\"code-snippet_outer\">)<\/span><\/code><code><span class=\"code-snippet_outer\">head(df)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span>\u8f6c\u6362\u4e3a\u56e0\u5b50\u6307\u5b9a\u7ed8\u56fe\u987a\u5e8f\uff1b<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">df$<\/span><span class=\"code-snippet__string\">'-log10(pvalue)'<\/span> <- -log10(df<span class=\"code-snippet__variable\">$Pvalue<\/span>) <span class=\"code-snippet__comment\">#\u65b0\u589e-log10p\u5217<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">df$<\/span>group <- factor(df<span class=\"code-snippet__variable\">$group<\/span>, levels = c(<span class=\"code-snippet__string\">\"up\"<\/span>,<span class=\"code-snippet__string\">\"down\"<\/span>,<span class=\"code-snippet__string\">\"none\"<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#<\/span>ggplot2\u5efa\u7acb\u6620\u5c04\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">p <- ggplot(data = df,<\/span><\/code><code><span class=\"code-snippet_outer\"> aes(x = log2FC, y = `-log10(pvalue)`, color = group)) + #\u5efa\u7acb\u6620\u5c04<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_point(size = 2.2) #\u7ed8\u5236\u6563\u70b9<\/span><\/code><code><span class=\"code-snippet_outer\"> p<\/span><\/code><\/pre>\n<\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p><span style=\"display: none;line-height: 0px;\">\u200d<\/span><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.703757225433526\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_jXLxh6jzyHvLPVBsBUduHueLnmWN9Q.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqwhRYr2R29HyMFmNe4CmgWqCTjXLxh6jzyHvLPVBsBUduHueLnmWN9Q\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"692\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p><span style=\"font-size: 14px;\"><\/span><\/p>\n<p style=\"text-align: center;white-space: normal;font-size: 16px;\"><o:p><\/o:p><\/p>\n<\/section>\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\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=\"perl\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u6839\u636e\u81ea\u5df1\u7684\u9700\u6c42\u53ef\u4ee5\u8c03\u6574\u4e0b\u5217\u53c2\u6570\uff0c\u8fdb\u884c\u7ed8\u56fe\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">p1 <- p +<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_x_continuous(limits = c(-<span class=\"code-snippet__number\">7<\/span>, <span class=\"code-snippet__number\">7<\/span>), breaks = se<span class=\"code-snippet__string\">q(-7, 7, by = 2)<\/span>)+<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_y_continuous(expand = expansion(add = c(<span class=\"code-snippet__number\">0<\/span>.<span class=\"code-snippet__number\">5<\/span>, <span class=\"code-snippet__number\">0<\/span>)),<\/span><\/code><code><span class=\"code-snippet_outer\"> limits = c(<span class=\"code-snippet__number\">0<\/span>, <span class=\"code-snippet__number\">10<\/span>), breaks = se<span class=\"code-snippet__string\">q(0, 10, by = 5)<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<\/section>\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6763005780346821\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_WibYaPEjL48tKzlO01c8oHEtdEDAoA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqLPibsib5NaHxSuIhyFH1bvQ33UBWibYaPEjL48tKzlO01c8oHEtdEDAoA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"692\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p><span style=\"font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;font-size: 14px;\"><span style=\"font-size: 14px;font-family: \u5b8b\u4f53;\"><\/span><\/span><\/p>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p><br \/><\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"objectivec\"><code><span class=\"code-snippet_outer\">#\u81ea\u5b9a\u4e49\u989c\u8272\u4e0e\u4e3b\u9898\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">mycol <- c(\"#EB4232\",\"#2DB2EB\",\"#d8d8d8\")<\/span><\/code><code><span class=\"code-snippet_outer\">mytheme <- theme_classic() +<\/span><\/code><code><span class=\"code-snippet_outer\"> theme(<\/span><\/code><code><span class=\"code-snippet_outer\"> axis.title = element_text(size = 15),<\/span><\/code><code><span class=\"code-snippet_outer\"> axis.text = element_text(size = 14),<\/span><\/code><code><span class=\"code-snippet_outer\"> legend.text = element_text(size = 14)<\/span><\/code><code><span class=\"code-snippet_outer\"> )<\/span><\/code><code><span class=\"code-snippet_outer\">p2 <- p1 +<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_colour_manual(name = \"\", values = alpha(mycol, 0.7)) +<\/span><\/code><code><span class=\"code-snippet_outer\"> mytheme<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: center;\"><br \/><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6893063583815029\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_ibW4heHVCicsDmibDZlx4bFzUfx6Yw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqLjtBohvBcJGwBBW2Y90qDsoAn7cibW4heHVCicsDmibDZlx4bFzUfx6Yw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"692\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<p style=\"text-align: center;\"><br \/><\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"xml\"><code><span class=\"code-snippet_outer\">#\u6dfb\u52a0\u9608\u503c\u8f85\u52a9\u7ebf<\/span><\/code><code><span class=\"code-snippet_outer\">p3 <- p2 +<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_hline(yintercept = c(-log10(pvalue)),size = 0.7,color = \"black\",lty = \"dashed\") + #\u6c34\u5e73\u9608\u503c\u7ebf<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_vline(xintercept = c(-log2FC, log2FC),size = 0.7,color = \"black\",lty = \"dashed\") #\u5782\u76f4\u9608\u503c\u7ebf<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: center;\"><br \/><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6720257234726688\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_aDAFfPiaA07U9O34ChXgFDaGX1ugCQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqePstQZVK7GMdQm36v1GibH5hPhaDAFfPiaA07U9O34ChXgFDaGX1ugCQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"622\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<h2 style=\"text-align: center;\"><em><strong><span style=\"mso-spacerun:'yes';font-family:\u9ed1\u4f53;mso-ascii-font-family:Arial;mso-hansi-font-family:Arial;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\">\u6dfb\u52a0\u53cc\u66f2\u7ebf<\/span><\/strong><\/em><strong><span style=\"mso-spacerun:'yes';font-family:\u9ed1\u4f53;mso-ascii-font-family:Arial;mso-hansi-font-family:Arial;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\"><o:p><\/o:p><\/span><\/strong><\/h2>\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<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<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"php\"><code><span class=\"code-snippet_outer\">#\u6839\u636e\u53cd\u6bd4\u4f8b\u51fd\u6570 y = 1\/X\u548c\u81ea\u5df1\u8bbe\u5b9a\u7684\u9608\u503c\u81ea\u5b9a\u4e49\u53cc\u66f2\u7ebf\u51fd\u6570<\/span><\/code><code><span class=\"code-snippet_outer\">f <- function(x){<\/span><\/code><code><span class=\"code-snippet_outer\"> inputx <- seq(0.0001, x, by = 0.0001)<\/span><\/code><code><span class=\"code-snippet_outer\"> y <- 1\/(inputx) + (-log10(pvalue))<\/span><\/code><code><span class=\"code-snippet_outer\"> dff <- rbind(data.frame(x = inputx + log2FC, y = y),<\/span><\/code><code><span class=\"code-snippet_outer\"> data.frame(x = -(inputx + log2FC), y = y))<\/span><\/code><code><span class=\"code-snippet_outer\"> return(dff)<\/span><\/code><code><span class=\"code-snippet_outer\">}<\/span><\/code><code><span class=\"code-snippet_outer\">#\u6839\u636e\u51fd\u6570\u751f\u6210\u6240\u9700\u7684\u66f2\u7ebf\u6570\u7ec4\u5750\u6807\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">dff_curve <- f(2)<\/span><\/code><code><span class=\"code-snippet_outer\">head(dff_curve)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u9700\u8981\u65b0\u589e\u66f2\u7ebf\u6570\u503c\u5217\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">##\u6bcf\u5217log2FoldChange\u503c\u5728\u66f2\u7ebf\u4e0a\u5bf9\u5e94\u7684y\u8f74\u5750\u6807\uff1b<\/span><\/code><code><span class=\"code-snippet_outer\">df$curve_y <- case_when(<\/span><\/code><code><span class=\"code-snippet_outer\"> df$log2FC > 0 ~ 1\/(df$log2FC-log2FC) + (-log10(pvalue)),<\/span><\/code><code><span class=\"code-snippet_outer\"> df$log2FC <= 0 ~ 1\/(-df$log2FC-log2FC) + (-log10(pvalue))<\/span><\/code><code><span class=\"code-snippet_outer\">)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u8ddf\u524d\u6587\u8bb2\u8ff0\u7684\u4e00\u6837\u6839\u636e\u66f2\u7ebf\u65b0\u589e\u4e0a\u4e0b\u8c03\u5206\u7ec4\u6807\u7b7e\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">df$group2 <- case_when(<\/span><\/code><code><span class=\"code-snippet_outer\"> df$`-log10(pvalue)` > df$curve_y & df$log2FC >= log2FC ~ 'up',<\/span><\/code><code><span class=\"code-snippet_outer\"> df$`-log10(pvalue)` > df$curve_y & df$log2FC <= -log2FC ~ 'down',<\/span><\/code><code><span class=\"code-snippet_outer\"> TRUE ~ 'none'<\/span><\/code><code><span class=\"code-snippet_outer\">)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u7ed8\u5236\u65b0\u53cc\u66f2\u7ebf\u9608\u503c\u706b\u5c71\u56fe\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">df$group2 <- factor(df$group2, levels = c(\"up\",\"down\",\"none\")) #\u6307\u5b9a\u987a\u5e8f<\/span><\/code><code><span class=\"code-snippet_outer\">mycol2 <- c(\"#F8B606\",\"#4A1985\",\"#d8d8d8\")<\/span><\/code><code><span class=\"code-snippet_outer\">p4 <- ggplot(data = df,<\/span><\/code><code><span class=\"code-snippet_outer\"> aes(x = log2FC, y = `-log10(pvalue)`, color = group2)) + #\u4f7f\u7528\u65b0\u7684\u5206\u7ec4<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_point(size = 2.2) +<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_x_continuous(limits = c(-7, 7), breaks = seq(-7, 7, by = 2)) +<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_y_continuous(expand = expansion(add = c(0.5, 0)),<\/span><\/code><code><span class=\"code-snippet_outer\"> limits = c(0, 10), breaks = seq(0, 10, by = 5)) +<\/span><\/code><code><span class=\"code-snippet_outer\"> scale_colour_manual(name = \"\", values = alpha(mycol2, 0.7)) +<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_line(data = dff_curve,<\/span><\/code><code><span class=\"code-snippet_outer\"> aes(x = x, y = y), #\u66f2\u7ebf\u5750\u6807<\/span><\/code><code><span class=\"code-snippet_outer\"> color = \"black\",lty = \"dashed\", size = 0.7) +<\/span><\/code><code><span class=\"code-snippet_outer\"> mytheme<\/span><\/code><code><span class=\"code-snippet_outer\">p4<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6791907514450867\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_eOibKCe9wwOtGw2bpX7jciaWPpCxrA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqIYkw181L5Grvuhddib9XFJ8ss7NeOibKCe9wwOtGw2bpX7jciaWPpCxrA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"692\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<h2 style=\"text-align: center;\"><em><strong><span style=\"mso-spacerun:'yes';font-family:\u9ed1\u4f53;mso-ascii-font-family:Arial;mso-hansi-font-family:Arial;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\">\u6dfb\u52a0\u6807\u7b7e<\/span><\/strong><\/em><strong><span style=\"mso-spacerun:'yes';font-family:\u9ed1\u4f53;mso-ascii-font-family:Arial;mso-hansi-font-family:Arial;mso-bidi-font-family:'Times New Roman';mso-ansi-font-weight:bold;font-size:16.0000pt;mso-font-kerning:1.0000pt;\"><o:p><\/o:p><\/span><\/strong><\/h2>\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=\"xml\"><code><span class=\"code-snippet_outer\">#\u7b5b\u9009\u663e\u8457\u6027top10\u6807\u7b7e\uff1a<\/span><\/code><code><span class=\"code-snippet_outer\">top10 <- filter(df, group2 != \"none\") %>%<\/span><\/code><code><span class=\"code-snippet_outer\"> distinct(GeneName, .keep_all = T) %>%<\/span><\/code><code><span class=\"code-snippet_outer\"> top_n(10, abs(log2FC))<\/span><\/code><code><span class=\"code-snippet_outer\">p5 <- p4 +<\/span><\/code><code><span class=\"code-snippet_outer\"> geom_text_repel(data = top10,<\/span><\/code><code><span class=\"code-snippet_outer\"> aes(x = log2FC, y = `-log10(pvalue)`, label = GeneName),<\/span><\/code><code><span class=\"code-snippet_outer\"> force = 80, color = 'black', size = 3.2,<\/span><\/code><code><span class=\"code-snippet_outer\"> point.padding = 0.5, hjust = 0.5,<\/span><\/code><code><span class=\"code-snippet_outer\"> arrow = arrow(length = unit(0.02, \"npc\"),<\/span><\/code><code><span class=\"code-snippet_outer\"> type = \"open\", ends = \"last\"),<\/span><\/code><code><span class=\"code-snippet_outer\"> segment.color=\"black\",<\/span><\/code><code><span class=\"code-snippet_outer\"> segment.size = 0.3,<\/span><\/code><code><span class=\"code-snippet_outer\"> nudge_x = 0,<\/span><\/code><code><span class=\"code-snippet_outer\"> nudge_y = 1)<\/span><\/code><code><span class=\"code-snippet_outer\">p5<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6820809248554913\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/8_Pt1iadiapD7UWgticZubztKEpnsu7Q.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAzRRponrmWezeJ06LYFcyFqS9Hbic5JtGyibxzNjJxLC2fJ9Qj5HPt1iadiapD7UWgticZubztKEpnsu7Q\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"692\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p><br \/><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\u8865\u5145\u5173\u4e8e\u706b\u5c71\u56fe\u5dee\u5f02\u7b5b\u9009\u7684\u7edf\u8ba1\u5b66\u610f\u4e49<\/span><span style=\"font-size: 14px;\">\uff1a<\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"text-decoration: underline;\"><strong><span style=\"text-decoration: underline;font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;color: rgb(0, 122, 170);\">1\u3001\u4ec0\u4e48\u662ffold change?<\/span><\/strong><\/span><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\"><\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\">\u5dee\u5f02\u500d\u6570\uff0c\u7b80\u5355\u6765\u8bf4\u5c31\u662f\u57fa\u56e0\u5728\u4e00\u7ec4\u6837\u54c1\u4e2d\u7684\u8868\u8fbe\u503c\u7684\u5747\u503c\u9664\u4ee5\u5176\u5728\u53e6\u4e00\u7ec4\u6837\u54c1\u4e2d\u7684\u8868\u8fbe\u503c\u7684\u5747\u503c\u3002\u6240\u4ee5\u706b\u5c71\u56fe\u53ea\u9002\u5408\u5c55\u793a\u4e24\u7ec4\u6837\u54c1\u4e4b\u95f4\u7684\u6bd4\u8f83\u3002<o:p><\/o:p><\/span><\/p>\n<p><span style=\"text-decoration: underline;\"><strong><span style=\"text-decoration: underline;font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;color: rgb(0, 122, 170);\">2\u3001\u4e3a\u4ec0\u4e48\u8981\u505aLog 2\u8f6c\u6362\uff1f<\/span><\/strong><\/span><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\"><\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\u7ed8\u5236\u5230\u56fe\u4e2d\u65f6\uff0c\u4e0a\u8c03\u5360\u7684\u7a7a\u95f4\u591a\uff0c\u4e0b\u8c03\u5360\u7684\u7a7a\u95f4\u5c11\uff0c\u5c55\u793a\u8d77\u6765\u4e0d\u65b9\u4fbf\u3002\u6240\u4ee5\u4e00\u822c\u4f1a\u505a<\/span>Log 2<span style=\"font-size: 14px;\">\u8f6c\u6362\u3002\u9ed8\u8ba4\u6211\u4eec\u90fd\u4f1a\u7528\u4e24\u500d\u5dee\u5f02 \uff08<\/span><span style=\"font-size: 14px;\">fold change == 2 | 0.5<\/span><span style=\"font-size: 14px;\">\uff09\u505a\u4e3a\u4e00\u4e2a\u7b5b\u9009\u6807\u51c6\u3002<\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"text-decoration: underline;\"><strong><span style=\"text-decoration: underline;font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;color: rgb(0, 122, 170);\">3\u3001P-value\u90fd\u6bd4\u8f83\u719f\u6089<\/span><\/strong><\/span><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\uff0c\u7edf\u8ba1\u68c0\u9a8c\u83b7\u5f97\u7684\u662f\u5426\u7edf\u8ba1\u5dee\u5f02\u663e\u8457\u7684\u4e00\u4e2a\u8861\u91cf\u503c\uff0c\u7ea6\u5b9a\u6210\u4fd7\u7684P-value<0.05\u4e3a\u7edf\u8ba1\u68c0\u9a8c\u663e\u8457\u7684\u5e38\u89c4\u6807\u51c6\u3002<\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"text-decoration: underline;\"><strong><span style=\"text-decoration: underline;font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;color: rgb(0, 122, 170);\">4\u3001\u4ec0\u4e48\u662fadjusted P-value?<\/span><\/strong><\/span><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\">\u505a\u5dee\u5f02\u57fa\u56e0\u68c0\u6d4b\u65f6\uff0c\u8981\u5bf9\u6210\u5343\u4e0a\u4e07\u7684\u57fa\u56e0\u5206\u522b\u505a\u5dee\u5f02\u7edf\u8ba1\u68c0\u9a8c\u3002\u7edf\u8ba1\u5b66\u5bb6\u8ba4\u4e3a\u505a\u8fd9\u4e48\u591a\u6b21\u7684\u68c0\u9a8c\uff0c\u672c\u8eab\u5c31\u4f1a\u5f15\u5165\u5047\u9633\u6027\u7ed3\u679c\uff0c\u9700\u8981\u505a\u4e00\u4e2a\u591a\u91cd\u5047\u8bbe\u68c0\u9a8c\u6821\u6b63\u3002<o:p><\/o:p><\/span><\/p>\n<p><span style=\"text-decoration: underline;\"><strong><span style=\"text-decoration: underline;font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;color: rgb(0, 122, 170);\">5\u3001\u4e3a\u4ec0\u4e48\u505a-Log 10\u8f6c\u6362\u5462\uff1f<\/span><\/strong><\/span><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\"><\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\u56e0\u4e3a<\/span>FDR<span style=\"font-size: 14px;\">\u503c\u662f<\/span><span style=\"font-size: 14px;\">0-1<\/span><span style=\"font-size: 14px;\">\u4e4b\u95f4\uff0c\u6570\u503c\u8d8a\u5c0f\u8d8a\u662f\u7edf\u8ba1\u663e\u8457\uff0c\u4e5f\u8d8a\u662f\u6211\u4eec\u5173\u6ce8\u7684\u3002<\/span><span style=\"font-size: 14px;\">-Log 10 (adjusted P-value)<\/span><span style=\"font-size: 14px;\">\u8f6c\u6362\u540e\u6b63\u597d\u662f\u53cd\u4e86\u591a\u6765\uff0c\u6570\u503c\u8d8a\u5927\u8d8a\u663e\u8457\uff0c\u800c\u4e14\u4ee5<\/span><span style=\"font-size: 14px;\">10<\/span><span style=\"font-size: 14px;\">\u4e3a\u5e95\u5f88\u5bb9\u6613\u6362\u7b97\u56de\u53bb\u3002<\/span><o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\u5982\u679c\u9047\u5230\u4e0d\u61c2\u7684\u4e5f\u53ef\u4ee5\u501f\u52a9\u7ebf\u4e0a\u7684\u4e91\u5e73\u53f0\u54e6\uff5e<\/span>http:\/\/www.biocloudservice.com\/home.html<o:p><\/o:p><\/span><\/p>\n<p><span style=\"font-size: 14px;font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;\"><span style=\"font-size: 14px;\">\u597d\u4e86\u4eca\u5929\u7684\u706b\u5c71\u56fe\u5c31\u8bb2\u5230\u8fd9\u91cc<\/span><span style=\"font-size: 14px;\">\uff0c\u6b22\u8fce\u5927\u5bb6\u6709\u95ee\u9898\u4e0e\u5c0f\u679c\u4e00\u8d77\u8ba8\u8bba\u54e6\uff5e<\/span><\/span><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<\/section>\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><span style=\"color: rgb(217, 33, 66);\"><span style=\"font-size: 10.5pt;font-family: \u5fae\u8f6f\u96c5\u9ed1;\">\u5176\u4ed6<\/span><span style=\"font-size: 10.5pt;font-family: 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