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Submitted by ChenLiang on Wed, 11/23/2016 - 22:44

a) Home: Link to the homepage of miRToolsGallery.

b) Filter and Rank: miRToolsGallery give users rich options to query, filter and rank the tools. The filters are based taxonomy terms and user could rank the tools by various ways, such as PageRank score, latest publish date, citation count, and vote.

c) Tutorial: Give user some practical cases and describe how miRToolsGallery should be used.

d) Tags Gallery: Show the tags in the database with a word cloud format, and illustrate the term usage in miRToolsGallery. There are also a term usage table in this tab, user could rank the term by frequency or alphabetical order.

e) Logo Gallery: Randomly show tools’ logo on the page and every logo links to the details of the tool. 

f) Review Paper Gallery: Collection of miRNA tools review papers. 

g) Submit Tools: This tab is a place for user contribute for the database and send new tools to miRToolsGallery. 

h) Contact Us: This tab give user a way to interact with us and send feedback to us which could help us make the database better.

Submitted by ChenLiang on Wed, 11/23/2016 - 22:46

Search sidebar aimed for searching the tools in miRToolsGallery and it’s case-insensitive. The search input has the autocomplete function and give users useful suggestions of keywords. 

Input keywords linked by space will be treated as linked with “and”. Example:  isomir  identification, will return contents which contain isomir and identification. While you could use uppercase OR to require all words, then you will get more results. Example: isomir  OR identification.

Use quotes to search for a phrase. Example: "isomir  identification".


Submitted by ChenLiang on Wed, 11/23/2016 - 22:47


miRToolsGallery is Tag-based, one tool is going to have many tags and one tag will belong to many tools. We systematically classify miRNA tools base on those tag terms and user could filtered out the target tools by those tags.    

a) Tags: is broad terms collection which involve many keywords.

b) Status: marks the availability of the tools, if the resource link (web server or source code) was deprecated/offline will label it as ‘dead’, on the contrary ‘active’ will be used.

c) Platform: tell the type of tools. All the tools develop as database or web server will be group to ‘web based’, and the other stand-alone program will be distributed into ‘Windows’, ‘Linux/Unix’, or ‘Mac OS’

d) Species: just tag the limitations of tools on the organism. Only list the most favourite/popular species with common name and the rest are mark as ‘Other species’

e) Implementation Technology: is for tagging the computer develop technique or program, such as Perl, PHP, and R.

f) Methods: list the common algorithm in the bioinformatics field.

miRToolsGallery uses a user-friendly selection to choose the term such as above screenshot. It can act as normal selection (scroll down and click), or an autocomplete search input to match the terms.



Due to there is more than 800 tools in the miRToolsGallery already, our database provide kinds of rank methods, such as latest publish date, PubMed citation count, publication count, average votes, and PageRank score based on citation network.

a) Latest Publish Date: If one tool got many publications, and the latest paper’s published time will be used.

b) PageRank Score: could represent the popularity of the tools in the miRNA research society based on the citation network.     

c) Average Votes: we allow every user no matter register or anonymous user can vote for the tools, this criterion calculate the average of the total votes.

d) PubMed Citation Count: The sum citation count of publications of certain tool.

e) Publication Count: equal to the number of papers the tool published.

After filter and rank, the result table would like below. And user can hide and show column by check the multi-selections under the right corner button.