12、geo數據上傳

1、注冊一個NCBI賬戶　　

　　注冊geo賬戶（老用戶和新用戶）：　　https://www.ncbi.nlm.nih.gov/geo/submitter/　　有3個月的時間

 　　GEO DataSets　　>>　　GEO Home　　>>　　Login to Submit 　　>>　　Recover Account (老用戶) 或者 Contact Information (新用戶)

2、GEOarchive has three required components:（准備文件）

　　　　1）a metadata spreadsheet;

     　　　　 

 

　　　　2）processed data files,

　　　　　　基因表達量文件（FPKM），如果有預測基因（novel）還要有5列　　chromosome　　start　　end　　strain　　length

　　　　　　如果沒有預測基因（novel）只需要A B 兩列

　　　　　　

　　　　3) raw data files.

　　　　　　Unix: md5sum <file>

3、Uploading your submission（上傳數據）　　　

• 　　Before you upload:
  • If you plan to submit more than 1 terabyte of data, you must e-mail GEO with a list of files and MD5 checksums before you begin transferring files (if your files are compressed, the checksums should be for the compressed files). This will allow us to more quickly remove files from the FTP server in order to keep space available for other users. Failure to notify us or provide checksums may lead to your files being removed from our systems without processing. Do not transfer files unless you are confident that you have a submission that includes all required components (raw data files, processed data files and metadata spreadsheet). We do not have the resources to store incomplete submissions. Incomplete submissions will be deleted from our systems.
  • On your computer, create a folder named using your GEO username (/renpp) which includes all required submission files. Transfer the folder using the FTP instructions below.
  • We strongly recommend that submitters compress their raw data files (e.g., FASTQ, qseq, seq, csfasta, qual) using gzip or bzip2 to shorten the ftp transfer time. Do not compress with WinZip. Do not tar archive single files. Do not compress binary files (e.g., BAM, bigWig, bigBed).

　　 FTP指令：推薦免費的客戶端軟件FileZilla。

　　　　Windows and Mac OS

　　　　　　　　     1、

host	ftp-private.ncbi.nlm.nih.gov Please use the 'fasp' directory.
username	geo
password	33%9uyj_fCh?M16H

　　　　　　　　      2、Drag-n-drop directory or file(s) into the /fasp directory on the FTP server. When transferring multiple files please drop the files into a directory that includes your GEO username.

　　　　　　　　　　（最好在fasp文件下面創建自己的文件，例如bmk）

　　　　Linux/Unix: we recommend that you try 'ncftp'. Optimized settings are detailed in this README file.

　　　　　　　　Here is a typical 'ncftp' session:

1. 1. 　　Connect to the server:
             ncftp ftp://geo:[e-mail]/fasp/
   2. 　　Set buffer size (recommended for faster transfer):
             set so-bufsize 33554432

　　　　　　　　　  3.　    Transfer an entire directory (named using your GEO username) plus content using:put -R GEOusername_directory

 

4、After you upload, send us an email notification:

• After file transfer is complete, you must e-mail GEO with the following information:
  1. GEO account username (renpp);
  2. Names of the directory and files deposited;
  3. Public release date (required - up to 3 years from now - see FAQ).  

 

總結：http://www.360doc.com/content/17/0222/16/19913717_631146462.shtml

　　    https://www.ncbi.nlm.nih.gov/geo/info/seq.html

　　　https://pan.baidu.com/s/1dEX2hoP　　　　提取密碼：j9nk　　　#### metadata spreadsheet