-
Notifications
You must be signed in to change notification settings - Fork 7
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
- Loading branch information
Showing
20 changed files
with
66,393 additions
and
0 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1 @@ | ||
| *.ini |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,194 @@ | ||
| <!DOCTYPE html> | ||
| <!--[if lt IE 7]> <html class="lt-ie9 lt-ie8 lt-ie7"> <![endif]--> | ||
| <!--[if IE 7]> <html class="lt-ie9 lt-ie8"> <![endif]--> | ||
| <!--[if IE 8]> <html class="lt-ie9"> <![endif]--> | ||
| <!--[if gt IE 8]><!--> <html class=""> <!--<![endif]--> | ||
| <head> | ||
| <title>fathmm - Inherited Mutation Analysis</title> | ||
|
|
||
| <meta charset="utf-8"> | ||
|
|
||
| <meta name="viewport" content="width=device-width, initial-scale=1.0"> | ||
| <meta name="description" content="Predict the Functional and Phenotypic Consequences of Protein Missense Variants"> | ||
| <meta name="keywords" content="Functional Analysis, Protein Missense Variants, Amino Acid Substitutions, Hidden Markov Models, HMMs, Single Nucleotide Polymorphisms, SNPs, Non Synonymous Mutation, nsSNPs, FATHMM"> | ||
| <meta name="author" content="Hashem A. Shihab"> | ||
|
|
||
| <meta http-equiv="cache-control" content="max-age=0" /> | ||
| <meta http-equiv="cache-control" content="no-cache" /> | ||
| <meta http-equiv="expires" content="0" /> | ||
| <meta http-equiv="expires" content="Tue, 01 Jan 1980 1:00:00 GMT" /> | ||
| <meta http-equiv="pragma" content="no-cache" /> | ||
|
|
||
| <!-- HTML5 "Upscaling" --> | ||
| <!--[if lt IE 9]> | ||
| <script src="http://html5shiv.googlecode.com/svn/trunk/html5.js"></script> | ||
| <![endif]--> | ||
|
|
||
| <link href="./css/bootstrap.css" rel="stylesheet"> | ||
| <link href="./css/bootstrap-responsive.css" rel="stylesheet"> | ||
| <link href="./css/fathmm.css" rel="stylesheet" type="text/css"> | ||
|
|
||
| <script type="text/javascript" src="./js/bootstrap.min.js"></script> | ||
| <script type="text/javascript" src="./js/jquery.min.js"></script> | ||
| </head> | ||
|
|
||
| <body> | ||
| <div class="container"> | ||
| <div class="navbar navbar-fixed-top"> | ||
| <div class="navbar-inner"> | ||
| <div class="container"> | ||
| <a class="btn btn-navbar" data-toggle="collapse" data-target=".nav-collapse"> | ||
| <span class="icon-bar"></span> | ||
| <span class="icon-bar"></span> | ||
| <span class="icon-bar"></span> | ||
| </a> | ||
| <a class="brand" href="#">fathmm</a> | ||
| <div class="nav-collapse collapse"> | ||
| <ul class="nav"> | ||
| <li><a href="./index.html">Home</a></li> | ||
| <li><a href="https://github.com/HAShihab/fathmm">Download</a></li> | ||
| <li class="dropdown"> | ||
| <a href="#" class="dropdown-toggle" data-toggle="dropdown">New Submission <b class="caret"></b></a> | ||
| <ul class="dropdown-menu"> | ||
| <li><a href="./inherited.html">Analyze dbSNP/Protein Variants</a></li> | ||
| <li><a href="./cancer.html">Analyze Cancer-Associated Variants</a></li> | ||
| </ul> | ||
| </li> | ||
| </ul> | ||
| <form class="navbar-form pull-right" action="./cgi-bin/results.cgi" method="post" enctype="multipart/form-data"> | ||
| <input class="span3" type="text" id="session" name="session" placeholder="Enter Your Job/Session Identifier"> | ||
| <button type="submit" class="btn">Fetch Results</button> | ||
| </form> | ||
| </div><!--/.nav-collapse --> | ||
| </div> | ||
| </div> | ||
| </div> | ||
|
|
||
| <div class="hero-unit"> | ||
| <h2>Analyze Cancer-Associated Variants</h2> | ||
| <br /> | ||
| <p> | ||
| retrieve instant disease-specific predictions capable of distinguishing between cancer-promoting/driver and neutral/passsenger mutations. | ||
| </p> | ||
| <p> | ||
| <a href="#info" role="button" data-toggle="modal" class="btn btn-primary btn-large pull-right">Example »</a> | ||
| </p> | ||
| </div> | ||
|
|
||
| <div id="info" class="modal hide fade" tabindex="-1" role="dialog" aria-labelledby="head" aria-hidden="true"> | ||
| <div class="modal-header"> | ||
| <h3 id="head">Submission Information:</h3> | ||
| </div> | ||
| <div class="modal-body"> | ||
| <p> | ||
| A combination of the below is accepted/valid input: | ||
| <br /> | ||
| <ul> | ||
| <li>Human dbSNP rs IDs (dbSNP 137 - multiple SNPs should be entered on separate lines). | ||
| </li> | ||
| <li> | ||
| Human SwissProt/TrEMBL and/or Ensembl protein identifiers followed by the amino | ||
| acid substitution in the conventional one letter format - multiple substitutions | ||
| can be entered on a single line and should be separated by a comma. | ||
| </li> | ||
| </ul> | ||
| <b>Example Submission:</b> | ||
| <br /> | ||
| <br /> | ||
| rs137854462 | ||
| <br /> | ||
| rs28936683 | ||
| <br /> | ||
| rs121908258 | ||
| <br /> | ||
| rs17132395 | ||
| <br /> | ||
| rs121912297 | ||
| <br /> | ||
| P43026 L441P | ||
| <br /> | ||
| P35555 N548I,E1073K,C2307S | ||
| <br /> | ||
| </p> | ||
| </div> | ||
| <div class="modal-footer"> | ||
| <button class="btn" data-dismiss="modal" aria-hidden="true">Close</button> | ||
| </div> | ||
| </div> | ||
|
|
||
| <div class="row"> | ||
| <div class="span12"> | ||
| <form class="form-horizontal" id="myForm" name="myForm" action="./cgi-bin/results.cgi" method="post" enctype="multipart/form-data"> | ||
| <legend><h3>Batch Query:</h3></legend> | ||
|
|
||
| <div class="row-fluid"> | ||
| <div class="span10 offset1"> | ||
| <div class="well well-large" style="height: 225px;"> | ||
| <div class="row-fluid"> | ||
| <div class="span12"> | ||
| <div class="row-fluid"> | ||
| <div class="span8"> | ||
| <div class="control-group"> | ||
| <label class="control-label" for="batch">User Input</label> | ||
| <div class="controls"> | ||
| <textarea id="batch" name="batch" type="text" class="span12" style="resize: none;" rows="5"></textarea> | ||
| </div> | ||
| </div> | ||
| </div> | ||
| <div class="help-inline span4"> | ||
| For further information pertaining to the submission format, please click on the 'Example' button above. | ||
| </div> | ||
| </div> | ||
| </div> | ||
| </div> | ||
| <input type="hidden" name="weighted" id="weighted" value="Cancer"> | ||
| <div class="row-fluid"> | ||
| <div class="span12"> | ||
| <div class="row-fluid"> | ||
| <div class="span8"> | ||
| <div class="control-group"> | ||
| <label class="control-label" for="phenotypes">Phenotypic Associations</label> | ||
| <div class="controls"> | ||
| <select id="phenotypes" name="phenotypes" class="span12"> | ||
| <option value="DO" selected>Disease Ontology</option> | ||
| <option value="HP">Human Phenotype Ontology</option> | ||
| <option value="MP">Mouse Phenotype Ontology</option> | ||
| <option value="WP">Worm Phenotype Ontology</option> | ||
| <option value="YP">Yeast Phenotype Ontology</option> | ||
| <option value="FP">Fly Phenotype Ontology</option> | ||
| <option value="FA">Fly Anatomy Ontology</option> | ||
| <option value="ZA">Zebrafish Anatomy Ontology</option> | ||
| <option value="AP">Arabidopsis Plant Ontology</option> | ||
| <option value="KW">UniProtKB KeyWords</option> | ||
| </select> | ||
| </div> | ||
| </div> | ||
| </div> | ||
| </div> | ||
| </div> | ||
| </div> | ||
| <div class="control-group pull-right"> | ||
| <div class="controls"> | ||
| <button type="reset" class="btn">Clear</button> | ||
| <button type="submit" class="btn">Submit</button> | ||
| </div> | ||
| </div> | ||
| </div> | ||
| </div> | ||
| </div> | ||
| </form> | ||
| </div> | ||
| </div> | ||
|
|
||
| <hr> | ||
| <footer> | ||
| <p> | ||
| We welcome any comments and/or suggestions that you may have regarding our software and server - please send an email directly to [email protected] | ||
| </p> | ||
| </footer> | ||
| </div> | ||
|
|
||
| <script type="text/javascript" src="./js/bootstrap.min.js"></script> | ||
| <script type="text/javascript" src="./js/jquery.min.js"></script> | ||
| </body> | ||
| </html> |
Oops, something went wrong.