无法使用biomaRt软件包从Entrez ID中获取基因符号 [英] Unable to use biomaRt package to get Gene Symbols from Entrez IDs

问题描述

我正在使用以下代码从Entrez ID中检索基因符号:

I am using the following code to retrieve Gene Symbols from Entrez IDs:

library("biomaRt")
ensembl <- useMart("ENSEMBL_MART_ENSEMBL", dataset = "hsapiens_gene_ensembl", host = "www.ensembl.org")

g <- getBM(c("hgnc_symbol"), filters = "entrezgene", c(entrez), ensembl)

但出现以下错误:

Error in value[[3L]](cond): Request to BioMart web service failed. Verify if you are still connected to the internet.  Alternatively the BioMart web service is temporarily down.
Traceback:

1. getBM(c("hgnc_symbol"), filters = "entrezgene", c(entrez), ensembl)
2. tryCatch(postForm(paste(martHost(mart), "?", sep = ""), query = xmlQuery), 
 .     error = function(e) {
 .         stop("Request to BioMart web service failed. Verify if you are still connected to the internet.  Alternatively the BioMart web service is temporarily down.")
 .     })
3. tryCatchList(expr, classes, parentenv, handlers)
4. tryCatchOne(expr, names, parentenv, handlers[[1L]])
5. value[[3L]](cond)
6. stop("Request to BioMart web service failed. Verify if you are still connected to the internet.  Alternatively the BioMart web service is temporarily down.")

推荐答案

打开 Internet Explorer ，转到 集合 功能.

Open Internet Explorer, go to the website used in the host parameter of your ensembl function.

然后转到设置"标签，并将其添加到"<受信任的网站" 列表中.

Then go to the settings tab, and add it to your Trusted Websites list.

这为我解决了问题.

希望它也对您有帮助.

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