Changes in e9fd847: update

				papers/paneaWholeGenomeLandscape2019.md
			
          @@ -8,7 +8,7 @@ bibliography: 'morinlab.bib'

           |Entity| Tier 1 genes| Tier 2 genes|

           |:-:|:-:|:-:|

          -|BL|4|39|

          +|BL|4|36|

           ```mermaid

           ---

           config:

          @@ -24,8 +24,8 @@ config:

           sankey-beta

           This study, New Tier 1, 4

           New Tier 1, BL Tier 1, 4

          -This study, New Tier 2, 39

          -New Tier 2, BL Tier 2, 39

          +This study, New Tier 2, 36

          +New Tier 2, BL Tier 2, 36

           All other BL studies, BL Tier 1, 25

           All other BL studies, BL Tier 2, 111

           ```

papers/paneaWholeGenomeLandscape2019.pdf

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          -<h1 id="paneawholegenomelandscape2019">@paneaWholeGenomeLandscape2019</h1>

          -<h2 id="summary-of-novel-genes">Summary of novel genes</h2>

          -<table>

          -<thead>

          -<tr>

          -<th style="text-align:center">Entity</th>

          -<th style="text-align:center">Tier 1 genes</th>

          -<th style="text-align:center">Tier 2 genes</th>

          -</tr>

          -</thead>

          -<tbody>

          -<tr>

          -<td style="text-align:center">BL</td>

          -<td style="text-align:center">4</td>

          -<td style="text-align:center">39</td>

          -</tr>

          -</tbody>

          -</table>

          -<pre><code class="language-mermaid"><div class="mermaid">---

          -config:

          -    sankey:

          -        showValues: true

          -        linkColor: target

          -        width: 600

          -        height: 300

          -        nodeAlignment: right

          -        prefix: '('

          -        suffix: ' genes)'

          ----

          -sankey-beta

          -This study, New Tier 1, 4

          -New Tier 1, BL Tier 1, 4

          -This study, New Tier 2, 39

          -New Tier 2, BL Tier 2, 39

          -All other BL studies, BL Tier 1, 25

          -All other BL studies, BL Tier 2, 111

          -</div></code></pre>

          -<h2 id="novel-genes-reported-in-this-study">Novel genes reported in this study</h2>

          -<h3 id="tier-1">Tier 1</h3>

          -<table>

          -<thead>

          -<tr>

          -<th style="text-align:left">New gene</th>

          -<th style="text-align:center">BL tier</th>

          -</tr>

          -</thead>

          -<tbody>

          -<tr>

          -<td style="text-align:left"><a href="../BMP7">BMP7</a></td>

          -<td style="text-align:center">1</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../EIF4A1">EIF4A1</a></td>

          -<td style="text-align:center">1</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../EPPK1">EPPK1</a></td>

          -<td style="text-align:center">1</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../HNRNPU">HNRNPU</a></td>

          -<td style="text-align:center">1</td>

          -</tr>

          -</tbody>

          -</table>

          -<h3 id="tier-2">Tier 2</h3>

          -<table>

          -<thead>

          -<tr>

          -<th style="text-align:left">New gene</th>

          -<th style="text-align:center">BL tier</th>

          -<th style="text-align:center">Rating of reviewed variants</th>

          -</tr>

          -</thead>

          -<tbody>

          -<tr>

          -<td style="text-align:left"><a href="../ALPK2">ALPK2</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../CD79B">CD79B</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../CD83">CD83</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../CTCF">CTCF</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../CXCR4">CXCR4</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ★ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../DNMT1">DNMT1</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../DTX1">DTX1</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../ETS1">ETS1</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../FZD3">FZD3</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../HIST1H1C">HIST1H1C</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../HIST1H2AG">HIST1H2AG</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../HIST1H2AM">HIST1H2AM</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">☆ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../HIST1H2BK">HIST1H2BK</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../HIST1H3D">HIST1H3D</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../HIST1H3H">HIST1H3H</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">☆ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../HIST1H3I">HIST1H3I</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ★ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../HIST1H3J">HIST1H3J</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">☆ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../HIST1H4J">HIST1H4J</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../IGLL5">IGLL5</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ★ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../IKZF3">IKZF3</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../IRF8">IRF8</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ★ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../KCNK10">KCNK10</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../MCL1">MCL1</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ★ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../MME">MME</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../MTOR">MTOR</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../PABPC4L">PABPC4L</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../PCDHA11">PCDHA11</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../PDZRN3">PDZRN3</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../PIK3R1">PIK3R1</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../PLCG2">PLCG2</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../PXDNL">PXDNL</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../RNF144B">RNF144B</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../SNTB2">SNTB2</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../WDR7">WDR7</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ☆ ☆ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../WNK2">WNK2</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ★ ☆</td>

          -</tr>

          -<tr>

          -<td style="text-align:left"><a href="../ZFP36L1">ZFP36L1</a></td>

          -<td style="text-align:center">2</td>

          -<td style="text-align:center">★ ★ ★ ★ ☆</td>

          -</tr>

          -</tbody>

          -</table>

          -<h1 id="details">Details</h1>

          -

          -</body>

          -</html>

...	...	@@ -8,7 +8,7 @@ bibliography: 'morinlab.bib'
8	8
9	9	\|Entity\| Tier 1 genes\| Tier 2 genes\|
10	10	\|:-:\|:-:\|:-:\|
11		-\|BL\|4\|39\|
	11	+\|BL\|4\|36\|
12	12	```mermaid
13	13	---
14	14	config:
...	...	@@ -24,8 +24,8 @@ config:
24	24	sankey-beta
25	25	This study, New Tier 1, 4
26	26	New Tier 1, BL Tier 1, 4
27		-This study, New Tier 2, 39
28		-New Tier 2, BL Tier 2, 39
	27	+This study, New Tier 2, 36
	28	+New Tier 2, BL Tier 2, 36
29	29	All other BL studies, BL Tier 1, 25
30	30	All other BL studies, BL Tier 2, 111
31	31	```

...	...	@@ -1,628 +0,0 @@
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367		- </script>
368		-<h1 id="paneawholegenomelandscape2019">@paneaWholeGenomeLandscape2019</h1>
369		-<h2 id="summary-of-novel-genes">Summary of novel genes</h2>
370		-<table>
371		-<thead>
372		-<tr>
373		-<th style="text-align:center">Entity</th>
374		-<th style="text-align:center">Tier 1 genes</th>
375		-<th style="text-align:center">Tier 2 genes</th>
376		-</tr>
377		-</thead>
378		-<tbody>
379		-<tr>
380		-<td style="text-align:center">BL</td>
381		-<td style="text-align:center">4</td>
382		-<td style="text-align:center">39</td>
383		-</tr>
384		-</tbody>
385		-</table>
386		-<pre><code class="language-mermaid"><div class="mermaid">---
387		-config:
388		- sankey:
389		- showValues: true
390		- linkColor: target
391		- width: 600
392		- height: 300
393		- nodeAlignment: right
394		- prefix: '('
395		- suffix: ' genes)'
396		----
397		-sankey-beta
398		-This study, New Tier 1, 4
399		-New Tier 1, BL Tier 1, 4
400		-This study, New Tier 2, 39
401		-New Tier 2, BL Tier 2, 39
402		-All other BL studies, BL Tier 1, 25
403		-All other BL studies, BL Tier 2, 111
404		-</div></code></pre>
405		-<h2 id="novel-genes-reported-in-this-study">Novel genes reported in this study</h2>
406		-<h3 id="tier-1">Tier 1</h3>
407		-<table>
408		-<thead>
409		-<tr>
410		-<th style="text-align:left">New gene</th>
411		-<th style="text-align:center">BL tier</th>
412		-</tr>
413		-</thead>
414		-<tbody>
415		-<tr>
416		-<td style="text-align:left"><a href="../BMP7">BMP7</a></td>
417		-<td style="text-align:center">1</td>
418		-</tr>
419		-<tr>
420		-<td style="text-align:left"><a href="../EIF4A1">EIF4A1</a></td>
421		-<td style="text-align:center">1</td>
422		-</tr>
423		-<tr>
424		-<td style="text-align:left"><a href="../EPPK1">EPPK1</a></td>
425		-<td style="text-align:center">1</td>
426		-</tr>
427		-<tr>
428		-<td style="text-align:left"><a href="../HNRNPU">HNRNPU</a></td>
429		-<td style="text-align:center">1</td>
430		-</tr>
431		-</tbody>
432		-</table>
433		-<h3 id="tier-2">Tier 2</h3>
434		-<table>
435		-<thead>
436		-<tr>
437		-<th style="text-align:left">New gene</th>
438		-<th style="text-align:center">BL tier</th>
439		-<th style="text-align:center">Rating of reviewed variants</th>
440		-</tr>
441		-</thead>
442		-<tbody>
443		-<tr>
444		-<td style="text-align:left"><a href="../ALPK2">ALPK2</a></td>
445		-<td style="text-align:center">2</td>
446		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
447		-</tr>
448		-<tr>
449		-<td style="text-align:left"><a href="../CD79B">CD79B</a></td>
450		-<td style="text-align:center">2</td>
451		-<td style="text-align:center">★ ★ ☆ ☆ ☆</td>
452		-</tr>
453		-<tr>
454		-<td style="text-align:left"><a href="../CD83">CD83</a></td>
455		-<td style="text-align:center">2</td>
456		-<td style="text-align:center">★ ★ ★ ☆ ☆</td>
457		-</tr>
458		-<tr>
459		-<td style="text-align:left"><a href="../CTCF">CTCF</a></td>
460		-<td style="text-align:center">2</td>
461		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
462		-</tr>
463		-<tr>
464		-<td style="text-align:left"><a href="../CXCR4">CXCR4</a></td>
465		-<td style="text-align:center">2</td>
466		-<td style="text-align:center">★ ★ ★ ★ ☆</td>
467		-</tr>
468		-<tr>
469		-<td style="text-align:left"><a href="../DNMT1">DNMT1</a></td>
470		-<td style="text-align:center">2</td>
471		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
472		-</tr>
473		-<tr>
474		-<td style="text-align:left"><a href="../DTX1">DTX1</a></td>
475		-<td style="text-align:center">2</td>
476		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
477		-</tr>
478		-<tr>
479		-<td style="text-align:left"><a href="../ETS1">ETS1</a></td>
480		-<td style="text-align:center">2</td>
481		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
482		-</tr>
483		-<tr>
484		-<td style="text-align:left"><a href="../FZD3">FZD3</a></td>
485		-<td style="text-align:center">2</td>
486		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
487		-</tr>
488		-<tr>
489		-<td style="text-align:left"><a href="../HIST1H1C">HIST1H1C</a></td>
490		-<td style="text-align:center">2</td>
491		-<td style="text-align:center">★ ★ ☆ ☆ ☆</td>
492		-</tr>
493		-<tr>
494		-<td style="text-align:left"><a href="../HIST1H2AG">HIST1H2AG</a></td>
495		-<td style="text-align:center">2</td>
496		-<td style="text-align:center">★ ★ ☆ ☆ ☆</td>
497		-</tr>
498		-<tr>
499		-<td style="text-align:left"><a href="../HIST1H2AM">HIST1H2AM</a></td>
500		-<td style="text-align:center">2</td>
501		-<td style="text-align:center">☆ ☆ ☆ ☆ ☆</td>
502		-</tr>
503		-<tr>
504		-<td style="text-align:left"><a href="../HIST1H2BK">HIST1H2BK</a></td>
505		-<td style="text-align:center">2</td>
506		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
507		-</tr>
508		-<tr>
509		-<td style="text-align:left"><a href="../HIST1H3D">HIST1H3D</a></td>
510		-<td style="text-align:center">2</td>
511		-<td style="text-align:center">★ ★ ★ ☆ ☆</td>
512		-</tr>
513		-<tr>
514		-<td style="text-align:left"><a href="../HIST1H3H">HIST1H3H</a></td>
515		-<td style="text-align:center">2</td>
516		-<td style="text-align:center">☆ ☆ ☆ ☆ ☆</td>
517		-</tr>
518		-<tr>
519		-<td style="text-align:left"><a href="../HIST1H3I">HIST1H3I</a></td>
520		-<td style="text-align:center">2</td>
521		-<td style="text-align:center">★ ★ ★ ★ ☆</td>
522		-</tr>
523		-<tr>
524		-<td style="text-align:left"><a href="../HIST1H3J">HIST1H3J</a></td>
525		-<td style="text-align:center">2</td>
526		-<td style="text-align:center">☆ ☆ ☆ ☆ ☆</td>
527		-</tr>
528		-<tr>
529		-<td style="text-align:left"><a href="../HIST1H4J">HIST1H4J</a></td>
530		-<td style="text-align:center">2</td>
531		-<td style="text-align:center">★ ★ ☆ ☆ ☆</td>
532		-</tr>
533		-<tr>
534		-<td style="text-align:left"><a href="../IGLL5">IGLL5</a></td>
535		-<td style="text-align:center">2</td>
536		-<td style="text-align:center">★ ★ ★ ★ ☆</td>
537		-</tr>
538		-<tr>
539		-<td style="text-align:left"><a href="../IKZF3">IKZF3</a></td>
540		-<td style="text-align:center">2</td>
541		-<td style="text-align:center">★ ★ ★ ☆ ☆</td>
542		-</tr>
543		-<tr>
544		-<td style="text-align:left"><a href="../IRF8">IRF8</a></td>
545		-<td style="text-align:center">2</td>
546		-<td style="text-align:center">★ ★ ★ ★ ☆</td>
547		-</tr>
548		-<tr>
549		-<td style="text-align:left"><a href="../KCNK10">KCNK10</a></td>
550		-<td style="text-align:center">2</td>
551		-<td style="text-align:center">★ ★ ☆ ☆ ☆</td>
552		-</tr>
553		-<tr>
554		-<td style="text-align:left"><a href="../MCL1">MCL1</a></td>
555		-<td style="text-align:center">2</td>
556		-<td style="text-align:center">★ ★ ★ ★ ☆</td>
557		-</tr>
558		-<tr>
559		-<td style="text-align:left"><a href="../MME">MME</a></td>
560		-<td style="text-align:center">2</td>
561		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
562		-</tr>
563		-<tr>
564		-<td style="text-align:left"><a href="../MTOR">MTOR</a></td>
565		-<td style="text-align:center">2</td>
566		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
567		-</tr>
568		-<tr>
569		-<td style="text-align:left"><a href="../PABPC4L">PABPC4L</a></td>
570		-<td style="text-align:center">2</td>
571		-<td style="text-align:center">★ ★ ☆ ☆ ☆</td>
572		-</tr>
573		-<tr>
574		-<td style="text-align:left"><a href="../PCDHA11">PCDHA11</a></td>
575		-<td style="text-align:center">2</td>
576		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
577		-</tr>
578		-<tr>
579		-<td style="text-align:left"><a href="../PDZRN3">PDZRN3</a></td>
580		-<td style="text-align:center">2</td>
581		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
582		-</tr>
583		-<tr>
584		-<td style="text-align:left"><a href="../PIK3R1">PIK3R1</a></td>
585		-<td style="text-align:center">2</td>
586		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
587		-</tr>
588		-<tr>
589		-<td style="text-align:left"><a href="../PLCG2">PLCG2</a></td>
590		-<td style="text-align:center">2</td>
591		-<td style="text-align:center">★ ★ ★ ☆ ☆</td>
592		-</tr>
593		-<tr>
594		-<td style="text-align:left"><a href="../PXDNL">PXDNL</a></td>
595		-<td style="text-align:center">2</td>
596		-<td style="text-align:center">★ ☆ ☆ ☆ ☆</td>
597		-</tr>
598		-<tr>
599		-<td style="text-align:left"><a href="../RNF144B">RNF144B</a></td>
600		-<td style="text-align:center">2</td>
601		-<td style="text-align:center">★ ★ ★ ☆ ☆</td>
602		-</tr>
603		-<tr>
604		-<td style="text-align:left"><a href="../SNTB2">SNTB2</a></td>
605		-<td style="text-align:center">2</td>
606		-<td style="text-align:center">★ ★ ☆ ☆ ☆</td>
607		-</tr>
608		-<tr>
609		-<td style="text-align:left"><a href="../WDR7">WDR7</a></td>
610		-<td style="text-align:center">2</td>
611		-<td style="text-align:center">★ ★ ☆ ☆ ☆</td>
612		-</tr>
613		-<tr>
614		-<td style="text-align:left"><a href="../WNK2">WNK2</a></td>
615		-<td style="text-align:center">2</td>
616		-<td style="text-align:center">★ ★ ★ ★ ☆</td>
617		-</tr>
618		-<tr>
619		-<td style="text-align:left"><a href="../ZFP36L1">ZFP36L1</a></td>
620		-<td style="text-align:center">2</td>
621		-<td style="text-align:center">★ ★ ★ ★ ☆</td>
622		-</tr>
623		-</tbody>
624		-</table>
625		-<h1 id="details">Details</h1>
626		-
627		-</body>
628		-</html>