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-<h1>MacSyDB/TXSSdb</h1>
-
 <div id="head">
-    <p>Protein secretion systems are key virulence factors of all major bacterial pathogens with an
-        LPS-containing outer membrane:
-        <span class="species">Shigella</span>, 
-        <span class="species">Escherichia coli</span>,
-        <span class="species">Yersinia pestis</span>, 
-        <span class="species">Salmonella</span>, 
-        <span class="species">Pseudomonas aeruginosa</span>, 
-        <span class="species">Helicobacter pylori</span>, 
-        <span class="species">Vibrio cholerae</span>,
-        etc.
-        Protein secretion systems are also involved in complex antagonistic ecological interactions between bacteria,
-        as recently exemplified by the ability of bacteria to use type 6 and type 5
-        secretion systems to respond to aggressive behaviour by other bacteria.
-    </p>
+
+
     <img src="images/txss_mb_named.png"  title="Secretion Systems schema"
          alt="Secretion Systems schema">
 
-    <p>We designed models and protein profiles to detect an unprecedented number and diversity (∼10000)
-        of bacterial protein secretion systems and evolutionarily related appendages in partial and
-        complete genomic data (<a href="#txsscan">TXSScan)</a>.</p>
+    <h1>MacSyDB/TXSSdb</h1>
 
-    <p>This database contains the results of the prediction of the most studied secretion systems in 1528 diderm bacteria:
-    <ul>
-        <li>T1SS</li>
-        <li>T2SS, and the related type IV pilus and Tad pilus</li>
-        <li>T3SS, and the related bacterial flagellum</li>
-        <li>T4SS </li>
-        <li>T5aSS, T5bSS and T5cSS</li>
-        <li>T6SS<span>i</span>, T6SS<span>ii</span> and T6SS<span>iii</span></li>
-        <li>T9SS</li>
-    </ul>
-    </p>
-
-    <div>
-    <p>References:</p>
-    <div class="citation">
-        <span class="citation_author">Abby SS,</span>
-        <span class="citation_author">Cury J,</span>
-        <span class="citation_author">Guglielmini J,</span>
-        <span class="citation_author">Néron B,</span>
-        <span class="citation_author">Touchon M,</span>
-        <span class="citation_author">Rocha EPC.</span>
-        <span class="citation_date">(2015)</span>
-        <span class="citation_article_title">Identification of protein secretion systems in bacterial genomes. Submitted.</span>
-        <a href="http://biorxiv.org/content/early/2015/11/09/031039">
-            <span class="citation_journal_title">(preprint available at http://biorxiv.org/content/early/2015/11/09/031039)</span>
-        </a>
-    </div>
-    <p>For T3SS and Flagellar profiles:</p>
-    <div class="citation">
-        <span class="citation_author">Abby SS</span>,
-        <span class="citation_author">Rocha EPC </span>
-        <span class="citation_date">(2012)</span>
-        <a href="http://www.plosgenetics.org/doi/pgen.1002983" target="_blank">
-         <span class="citation_article_title">The Non-Flagellar Type III Secretion System Evolved from the Bacterial
-             Flagellum and Diversified into Host-Cell Adapted Systems.</span></a>
-        <span class="citation_journal_title">PLoS Genet</span>
-        <span class="citation_issue"> 8(9):</span>
-        <span class="citation_start_page">e1002983.</span>
-    </div>
-    <p>For T4SS profiles:</p>
-    <div class="citation">
-        <span class="citation_author">Guglielmini, J.</span>,
-        <span class="citation_author">Quintais, L.</span>,
-        <span class="citation_author">Garcillan-Barcia, M. P.,</span>
-        <span class="citation_author">de la Cruz,F.</span>
-        <span class="citation_author">Rocha, E. P.</span>
-        <span class="citation_date">(2011)</span>
-        <span class="citation_article_title">The Repertoire of ICE in Prokaryotes Underscores the Unity, Diversity, and Ubiquity of Conjugation.</span></a>
-        <span class="citation_journal_title">PLoS Genet.</span>
-        <span class="citation_issue">7,</span>
-        <span class="citation_start_page">e1002222,</span>
-        <a href="https://dx.doi.org/10.1371/journal.pgen.1002222">doi:10.1371/journal.pgen.1002222</a>
-    </div>
-    <div class="citation">
-        <span class="citation_author">Guglielmini, J. et al.</span>,
-        <span class="citation_article_title">Key components of the eight classes of type IV secretion systems involved in bacterial conjugation or protein secretion.</span>
-        <span class="citation_date">(2014)</span>.
-        <span class="citation_journal_title"> Nucleic Acids Res.</span>,
-        <a href="https://dx.doi.org/10.1093/nar/gku194">doi:10.1093/nar/gku194</a>.
-    </div>
-        </div>
-    <div>
-        <p id="txsscan">The tool “TXSScan” developed and used in our study is freely available for systematic searches in large datasets (standalone version) or in a webserver.
-        </p>
-        <ul>
-            <li>You can use the <a href="http://mobyle.pasteur.fr/cgi-bin/portal.py#forms::txsscan">webserver version.</a></li>
-            <li>Or <a href="https://researchpullzone-yhello.netdna-ssl.com/wp-content/uploads/2015/10/research.pasteur.fr_txsscan-models-and-profiles-for-protein-secretion-systems.gz">
-                download the protein profiles and the MacSyFinder models click here: FileS1_TXSScan.tar</a>.</li>
-        </ul>
-        The models and profiles are to be used in conjunction with MacSyFinder and MacSyView
-        (<a href="https://github.com/gem-pasteur/macsyfinder">MacSyFinder</a> and 
-        <a href="https://github.com/gem-pasteur/macsyview">MacSyView</a> are freely available).
-        The documentation on these programs can be found at <a href="http://macsyfinder.readthedocs.org/">http://macsyfinder.readthedocs.org/</a>.</p>
-        <p>Reference:</p>
-        <div class="citation">
-        <span class="citation_author">Abby SS</span>,
-        <span class="citation_author">Rocha EPC </span>
-        <span class="citation_date">(2012)</span>
-        <a href="http://www.plosgenetics.org/doi/pgen.1002983" target="_blank">
-         <span class="citation_article_title">The Non-Flagellar Type III Secretion System Evolved from the Bacterial
-             Flagellum and Diversified into Host-Cell Adapted Systems.</span></a>
-        <span class="citation_journal_title">PLoS Genet</span>
-        <span class="citation_issue"> 8(9):</span>
-        <span class="citation_start_page">e1002983.</span>
-    </div>
-    </div>
 
+    <p>Protein secretion systems are key virulence factors of all major bacterial pathogens with an
+        LPS-containing outer membrane. They are also involved in complex antagonistic ecological interactions between
+        bacteria. We designed models and protein profiles to detect an unprecedented number and diversity (∼10000)
+        of bacterial protein secretion systems (T1SS, T2SS, T3SS, T4SS, T5SS, T6SS<sup>i-iii</sup>, T9SS) and evolutionarily related appendages
+        (T4P, Tad, Flagellum) in 1528 genomes of diderm bacteria.
+        <a href="http://macsydb.web.pasteur.fr/txssdb/_design/txssdb/index.html#txsscan">The TXSScan tool is also now available</a>.
+    </p>
 </div>
 
 <div id="request">
@@ -160,7 +65,75 @@
         </fieldset>
     </form>
 </div>
+
 <div id="results"></div>
+
+<div id="links">
+        <p>TXSScan is freely available for systematic searches in large datasets (standalone version) or in a webserver.</p>
+        <ul>
+            <li>You can use the <a href="http://mobyle.pasteur.fr/cgi-bin/portal.py#forms::txsscan">webserver version.</a></li>
+            <li>Or <a href="https://researchpullzone-yhello.netdna-ssl.com/wp-content/uploads/2015/10/research.pasteur.fr_txsscan-models-and-profiles-for-protein-secretion-systems.gz">
+                download the protein profiles and the MacSyFinder models click here: FileS1_TXSScan.tar</a>.</li>
+        </ul>
+        The models and profiles are to be used in conjunction with MacSyFinder and MacSyView
+        (<a href="https://github.com/gem-pasteur/macsyfinder">MacSyFinder</a> and 
+        <a href="https://github.com/gem-pasteur/macsyview">MacSyView</a> are freely available).
+        The documentation on these programs can be found at <a href="http://macsyfinder.readthedocs.org/">http://macsyfinder.readthedocs.org/</a>.</p>
+</div>
+<div id="references">
+        <h2>References:</h2>
+        <div class="citation">
+            <span class="citation_author">Abby SS,</span>
+            <span class="citation_author">Cury J,</span>
+            <span class="citation_author">Guglielmini J,</span>
+            <span class="citation_author">Néron B,</span>
+            <span class="citation_author">Touchon M,</span>
+            <span class="citation_author">Rocha EPC.</span>
+            <span class="citation_date">(2015)</span>
+            <span class="citation_article_title">Identification of protein secretion systems in bacterial genomes. Submitted.</span>
+            <a href="http://biorxiv.org/content/early/2015/11/09/031039">
+                <span class="citation_journal_title">(preprint available at http://biorxiv.org/content/early/2015/11/09/031039)</span>
+            </a>
+        </div>
+    <p>For T3SS and Flagellar profiles:</p>
+    <div class="citation">
+            <span class="citation_author">Abby SS</span>,
+            <span class="citation_author">Rocha EPC </span>
+            <span class="citation_date">(2012)</span>
+            <a href="http://www.plosgenetics.org/doi/pgen.1002983" target="_blank">
+         <span class="citation_article_title">The Non-Flagellar Type III Secretion System Evolved from the Bacterial
+             Flagellum and Diversified into Host-Cell Adapted Systems.</span></a>
+            <span class="citation_journal_title">PLoS Genet</span>
+            <span class="citation_issue"> 8(9):</span>
+            <span class="citation_start_page">e1002983.</span>
+        </div>
+    <p>For T4SS profiles:</p>
+    <div class="citation">
+            <span class="citation_author">Guglielmini, J.</span>,
+            <span class="citation_author">Quintais, L.</span>,
+            <span class="citation_author">Garcillan-Barcia, M. P.,</span>
+            <span class="citation_author">de la Cruz,F.</span>
+            <span class="citation_author">Rocha, E. P.</span>
+            <span class="citation_date">(2011)</span>
+            <span class="citation_article_title">The Repertoire of ICE in Prokaryotes Underscores the Unity, Diversity, and Ubiquity of Conjugation.</span></a>
+            <span class="citation_journal_title">PLoS Genet.</span>
+            <span class="citation_issue">7,</span>
+            <span class="citation_start_page">e1002222,</span>
+            <a href="https://dx.doi.org/10.1371/journal.pgen.1002222">doi:10.1371/journal.pgen.1002222</a>
+        </div>
+        <div class="citation">
+            <span class="citation_author">Guglielmini, J. et al.</span>,
+            <span class="citation_article_title">Key components of the eight classes of type IV secretion systems involved in bacterial conjugation or protein secretion.</span>
+            <span class="citation_date">(2014)</span>.
+            <span class="citation_journal_title"> Nucleic Acids Res.</span>,
+            <a href="https://dx.doi.org/10.1093/nar/gku194">doi:10.1093/nar/gku194</a>.
+        </div>
+    </div>
+
+</div>
+
+
+
 <div id="footer">
     Visit our website:
     <a href="https://research.pasteur.fr/en/team/microbial-evolutionary-genomics/">Microbial evolutionary genomics group</a>
diff --git a/src/couchapp/txssdb/_attachments/style/main.css b/src/couchapp/txssdb/_attachments/style/main.css
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@@ -6,7 +6,7 @@ body {
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@@ -22,7 +22,7 @@ h2 {
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@@ -37,6 +37,7 @@ h2 {
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+
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@@ -76,6 +77,24 @@ h2 {
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