papers/paneaWholeGenomeLandscape2019.md
... ...
@@ -43,11 +43,24 @@ All other BL studies, BL Tier 2, 111
43 43
### Tier 2
44 44
|New gene|BL tier|Rating of reviewed variants|QC outcome|
45 45
|:-|:-:|:-:|:-:|
46
+|[CD83](../CD83)|2 | ★ ★ ★ ☆ ☆|**Pass**|
47
+|[CXCR4](../CXCR4)|2 | ★ ★ ★ ★ ☆|**Pass**|
48
+|[HIST1H3I](../HIST1H3I)|2 |★ ★ ★ ★ ☆|**Pass**|
49
+|[HIST1H4J](../HIST1H4J)|2 |★ ★ ★ ☆ ☆|**Pass**|
50
+|[IGLL5](../IGLL5)|2 |★ ★ ★ ★ ☆|**Pass**|
51
+|[IKZF3](../IKZF3)|2 |★ ★ ★ ☆ ☆|**Pass**|
52
+|[IRF8](../IRF8)|2 |★ ★ ★ ★ ☆|**Pass**|
53
+|[MCL1](../MCL1)|2 |★ ★ ★ ★ ☆|**Pass**|
54
+|[HIST1H3D](../HIST1H3D)|2 |★ ★ ★ ☆ ☆|**Pass**|
55
+|[WNK2](../WNK2)|2 |★ ★ ★ ★ ☆|**Pass**|
56
+|[ZFP36L1](../ZFP36L1)|2 |★ ★ ★ ★ ☆|**Pass**|
57
+|[RNF144B](../RNF144B)|2 |★ ★ ★ ☆ ☆|**Pass**|
58
+
46 59
|[ALPK2](../ALPK2)|2 | ★ ☆ ☆ ☆ ☆|**Fail**|
47 60
|[CD79B](../CD79B)|2 | ★ ★ ☆ ☆ ☆|**Fail**|
48
-|[CD83](../CD83)|2 | ★ ★ ★ ☆ ☆|**Pass**|
61
+
49 62
|[CTCF](../CTCF)|2 | ★ ☆ ☆ ☆ ☆|**Fail**|
50
-|[CXCR4](../CXCR4)|2 | ★ ★ ★ ★ ☆|**Pass**|
63
+
51 64
|[DNMT1](../DNMT1)|2 | ★ ☆ ☆ ☆ ☆|**Fail**|
52 65
|[DTX1](../DTX1)|2 | ★ ☆ ☆ ☆ ☆|**Fail**|
53 66
|[ETS1](../ETS1)|2 | ★ ☆ ☆ ☆ ☆|**Fail**|
... ...
@@ -56,16 +69,13 @@ All other BL studies, BL Tier 2, 111
56 69
|[HIST1H2AG](../HIST1H2AG)|2 | ★ ★ ☆ ☆ ☆|**Fail**|
57 70
|[HIST1H2AM](../HIST1H2AM)|2 | ☆ ☆ ☆ ☆ ☆|**Fail**|
58 71
|[HIST1H2BK](../HIST1H2BK)|2 | ★ ☆ ☆ ☆ ☆|**Fail**|
59
-|[HIST1H3D](../HIST1H3D)|2 |★ ★ ★ ☆ ☆|**Pass**|
72
+
60 73
|[HIST1H3H](../HIST1H3H)|2 |☆ ☆ ☆ ☆ ☆|**Fail**|
61
-|[HIST1H3I](../HIST1H3I)|2 |★ ★ ★ ★ ☆|**Pass**|
74
+
62 75
|[HIST1H3J](../HIST1H3J)|2 |☆ ☆ ☆ ☆ ☆|**Fail**|
63
-|[HIST1H4J](../HIST1H4J)|2 |★ ★ ★ ☆ ☆|**Pass**|
64
-|[IGLL5](../IGLL5)|2 |★ ★ ★ ★ ☆|**Pass**|
65
-|[IKZF3](../IKZF3)|2 |★ ★ ★ ☆ ☆|**Pass**|
66
-|[IRF8](../IRF8)|2 |★ ★ ★ ★ ☆|**Pass**|
76
+
67 77
|[KCNK10](../KCNK10)|2 |★ ★ ☆ ☆ ☆|**Fail**|
68
-|[MCL1](../MCL1)|2 |★ ★ ★ ★ ☆|**Pass**|
78
+
69 79
|[MME](../MME)|2 |★ ☆ ☆ ☆ ☆|**Fail**|
70 80
|[MTOR](../MTOR)|2 |★ ☆ ☆ ☆ ☆|**Fail**|
71 81
|[PABPC4L](../PABPC4L)|2 |★ ★ ☆ ☆ ☆|**Fail**|
... ...
@@ -74,12 +84,9 @@ All other BL studies, BL Tier 2, 111
74 84
|[PIK3R1](../PIK3R1)|2 |★ ☆ ☆ ☆ ☆|**Fail**|
75 85
|[PLCG2](../PLCG2)|2 |★ ★ ★ ☆ ☆|**Pass**|
76 86
|[PXDNL](../PXDNL)|2 |★ ☆ ☆ ☆ ☆|**Fail**|
77
-|[RNF144B](../RNF144B)|2 |★ ★ ★ ☆ ☆|**Pass**|
87
+
78 88
|[SNTB2](../SNTB2)|2 |★ ★ ☆ ☆ ☆|**Fail**|
79 89
|[WDR7](../WDR7)|2 |★ ★ ☆ ☆ ☆|**Fail**|
80
-|[WNK2](../WNK2)|2 |★ ★ ★ ★ ☆|**Pass**|
81
-|[ZFP36L1](../ZFP36L1)|2 |★ ★ ★ ★ ☆|**Pass**|
82
-
83 90
84 91
# Details
85 92
papers/paneaWholeGenomeLandscape2019_tmp.html
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+ </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">36</td>
383
+</tr>
384
+</tbody>
385
+</table>
386
+<pre><code class="language-mermaid"><div class="mermaid">---
387
+config:
388
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389
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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, 36
401
+New Tier 2, BL Tier 2, 36
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
+<th style="text-align:center">QC outcome</th>
441
+</tr>
442
+</thead>
443
+<tbody>
444
+<tr>
445
+<td style="text-align:left"><a href="../CD83">CD83</a></td>
446
+<td style="text-align:center">2</td>
447
+<td style="text-align:center">★ ★ ★ ☆ ☆</td>
448
+<td style="text-align:center"><strong>Pass</strong></td>
449
+</tr>
450
+<tr>
451
+<td style="text-align:left"><a href="../CXCR4">CXCR4</a></td>
452
+<td style="text-align:center">2</td>
453
+<td style="text-align:center">★ ★ ★ ★ ☆</td>
454
+<td style="text-align:center"><strong>Pass</strong></td>
455
+</tr>
456
+<tr>
457
+<td style="text-align:left"><a href="../HIST1H3I">HIST1H3I</a></td>
458
+<td style="text-align:center">2</td>
459
+<td style="text-align:center">★ ★ ★ ★ ☆</td>
460
+<td style="text-align:center"><strong>Pass</strong></td>
461
+</tr>
462
+<tr>
463
+<td style="text-align:left"><a href="../HIST1H4J">HIST1H4J</a></td>
464
+<td style="text-align:center">2</td>
465
+<td style="text-align:center">★ ★ ★ ☆ ☆</td>
466
+<td style="text-align:center"><strong>Pass</strong></td>
467
+</tr>
468
+<tr>
469
+<td style="text-align:left"><a href="../IGLL5">IGLL5</a></td>
470
+<td style="text-align:center">2</td>
471
+<td style="text-align:center">★ ★ ★ ★ ☆</td>
472
+<td style="text-align:center"><strong>Pass</strong></td>
473
+</tr>
474
+<tr>
475
+<td style="text-align:left"><a href="../IKZF3">IKZF3</a></td>
476
+<td style="text-align:center">2</td>
477
+<td style="text-align:center">★ ★ ★ ☆ ☆</td>
478
+<td style="text-align:center"><strong>Pass</strong></td>
479
+</tr>
480
+<tr>
481
+<td style="text-align:left"><a href="../IRF8">IRF8</a></td>
482
+<td style="text-align:center">2</td>
483
+<td style="text-align:center">★ ★ ★ ★ ☆</td>
484
+<td style="text-align:center"><strong>Pass</strong></td>
485
+</tr>
486
+<tr>
487
+<td style="text-align:left"><a href="../MCL1">MCL1</a></td>
488
+<td style="text-align:center">2</td>
489
+<td style="text-align:center">★ ★ ★ ★ ☆</td>
490
+<td style="text-align:center"><strong>Pass</strong></td>
491
+</tr>
492
+<tr>
493
+<td style="text-align:left"><a href="../HIST1H3D">HIST1H3D</a></td>
494
+<td style="text-align:center">2</td>
495
+<td style="text-align:center">★ ★ ★ ☆ ☆</td>
496
+<td style="text-align:center"><strong>Pass</strong></td>
497
+</tr>
498
+<tr>
499
+<td style="text-align:left"><a href="../WNK2">WNK2</a></td>
500
+<td style="text-align:center">2</td>
501
+<td style="text-align:center">★ ★ ★ ★ ☆</td>
502
+<td style="text-align:center"><strong>Pass</strong></td>
503
+</tr>
504
+<tr>
505
+<td style="text-align:left"><a href="../ZFP36L1">ZFP36L1</a></td>
506
+<td style="text-align:center">2</td>
507
+<td style="text-align:center">★ ★ ★ ★ ☆</td>
508
+<td style="text-align:center"><strong>Pass</strong></td>
509
+</tr>
510
+<tr>
511
+<td style="text-align:left"><a href="../RNF144B">RNF144B</a></td>
512
+<td style="text-align:center">2</td>
513
+<td style="text-align:center">★ ★ ★ ☆ ☆</td>
514
+<td style="text-align:center"><strong>Pass</strong></td>
515
+</tr>
516
+</tbody>
517
+</table>
518
+<p>|<a href="../ALPK2">ALPK2</a>|2 | ★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|
519
+|<a href="../CD79B">CD79B</a>|2 | ★ ★ ☆ ☆ ☆|<strong>Fail</strong>|</p>
520
+<p>|<a href="../CTCF">CTCF</a>|2 | ★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|</p>
521
+<p>|<a href="../DNMT1">DNMT1</a>|2 | ★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|
522
+|<a href="../DTX1">DTX1</a>|2 | ★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|
523
+|<a href="../ETS1">ETS1</a>|2 | ★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|
524
+|<a href="../FZD3">FZD3</a>|2 | ★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|
525
+|<a href="../HIST1H1C">HIST1H1C</a>|2 | ★ ★ ☆ ☆ ☆|<strong>Fail</strong>|
526
+|<a href="../HIST1H2AG">HIST1H2AG</a>|2 | ★ ★ ☆ ☆ ☆|<strong>Fail</strong>|
527
+|<a href="../HIST1H2AM">HIST1H2AM</a>|2 | ☆ ☆ ☆ ☆ ☆|<strong>Fail</strong>|
528
+|<a href="../HIST1H2BK">HIST1H2BK</a>|2 | ★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|</p>
529
+<p>|<a href="../HIST1H3H">HIST1H3H</a>|2 |☆ ☆ ☆ ☆ ☆|<strong>Fail</strong>|</p>
530
+<p>|<a href="../HIST1H3J">HIST1H3J</a>|2 |☆ ☆ ☆ ☆ ☆|<strong>Fail</strong>|</p>
531
+<p>|<a href="../KCNK10">KCNK10</a>|2 |★ ★ ☆ ☆ ☆|<strong>Fail</strong>|</p>
532
+<p>|<a href="../MME">MME</a>|2 |★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|
533
+|<a href="../MTOR">MTOR</a>|2 |★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|
534
+|<a href="../PABPC4L">PABPC4L</a>|2 |★ ★ ☆ ☆ ☆|<strong>Fail</strong>|
535
+|<a href="../PCDHA11">PCDHA11</a>|2 |★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|
536
+|<a href="../PDZRN3">PDZRN3</a>|2 |★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|
537
+|<a href="../PIK3R1">PIK3R1</a>|2 |★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|
538
+|<a href="../PLCG2">PLCG2</a>|2 |★ ★ ★ ☆ ☆|<strong>Pass</strong>|
539
+|<a href="../PXDNL">PXDNL</a>|2 |★ ☆ ☆ ☆ ☆|<strong>Fail</strong>|</p>
540
+<p>|<a href="../SNTB2">SNTB2</a>|2 |★ ★ ☆ ☆ ☆|<strong>Fail</strong>|
541
+|<a href="../WDR7">WDR7</a>|2 |★ ★ ☆ ☆ ☆|<strong>Fail</strong>|</p>
542
+<h1 id="details">Details</h1>
543
+
544
+</body>
545
+</html>