Manuals of OTTER : using this tool in several ways.

1. Using OTTER on user's Linux servers

To use OTTER on local Linux servers, you need to download the PubMed Abstract Data Files, Indexing Tables and Executable OTTER programs for Linux from the  OTTER Download  page. After proper configuration, you can submit jobs on local Linux workstations or servers. The detailed manual (PDF Version) for Usage on Linux Servers is provided as bellow :

OTTER Manaul for Usage on Linux Servers (PDF version)

2. Using OTTER on user's Windows PC

To use OTTER on local Windows PCs or laptops, you need to download the PubMed Abstract Data Files, Indexing Tables and Executable OTTER programs for Windows from the  OTTER Download  page. After proper configuration, you can submit jobs on local Windows PCs or laptops. The detailed manual (PDF Version) for Usage on Windows PCs or laptops is provided as bellow :

OTTER Manaul for Usage on Windows PC (PDF version)

3. Using OTTER via email

Send your "Gene List" and "Keyword List" (no more than five keywords) to the following e-mail address :

otter_run@163.com

Then you will get the Output Charts and Table of OTTER run in 3~5 working days.

We have powerful clusters and workstations in our lab and institute. But the network firewall prohibits any connection from computers outside our institute. Thus, please send your input files (Gene List File and Keyword File) to us via email. Our technician will check this email-box twice everyday and submit your jobs ASAP. You will receive your results via email very soon.

4. Using OTTER on this web-server

The computing resource on this web-server is limited. Extensive usage in a short time will cause unexpected delay and massive waste of queuing time. If you feel difficult to download and set up the local version of OTTER on Windows PC or Linux server, and you don't want to use OTTER via email either, you can go to the  OTTER Submit  page to upload your files and wait for the results.


Academic users can use Output Charts and Tables of OTTER in publication or presentation.

Correspondence : Dr. Hao Zhang, Chemical Biology Research Center

Shanghai Institute of Materia Medica, Chinese Academy of Sciences