从2011年1月我就在实验室的QQ群里发群邮件说IPI关门,时至今日,已经关门3年了,主页上一直停留在关门大吉的那一刻。 我不断在邮件里, lab meeting上强调要换成uniprot来搜库,然而时至今日,依然还是有很多的人在使用IPI,想想真可怕,实验室真是100年不更新一下数据啊。 另外一个我非常讨厌的就是GI号,它压根就不是正儿八经的ID号,但他们从来就不愿意尝试改变。 比如上面这个蛋白质序列的FASTA文件,注释行有很多信息,比如: >gi|16128001|ref|NP_414548.1| putative transporter [Escherichia coli str. K-12 substr. MG1655] 显然搜库时可以使用NP_414548.1做为ID,这个问题我说过N多遍,但他们一定会用他们惯用的gi|16128001来做ID。 问题是很明显的: GI number (sometimes written in lower case, “gi”) is simply a series of digits that are assigned consecutively to each sequence record processed by NCBI. The GI number bears no resemblance to the Accession number of the sequence record. The GI number has been used for many years by NCBI to track sequence histories in GenBank and the other sequence databases it maintains.

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Author's picture

Guangchuang Yu

a senior-in-age-but-not-senior-in-knowledge bioinformatician

Postdoc researcher

Hong Kong