Skip to content

Commit 4345efd

Browse files
authored
Merge pull request #207 from monarch-initiative/generate-pages-20260128-165131
📄 Regenerate pages and dashboard (2026-01-28)
2 parents a0c0184 + ed93ac7 commit 4345efd

File tree

126 files changed

+4575
-696
lines changed

Some content is hidden

Large Commits have some content hidden by default. Use the searchbox below for content that may be hidden.

126 files changed

+4575
-696
lines changed

app/data.js

Lines changed: 79 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -20079,6 +20079,85 @@ window.searchData = [
2007920079
"causal_graph_edges": "0",
2008020080
"causal_graph_longest_path": "0"
2008120081
},
20082+
{
20083+
"name": "Sengers syndrome",
20084+
"disease_id": "MONDO:0008922",
20085+
"category": "Mendelian",
20086+
"parents": [],
20087+
"subtypes": [],
20088+
"description": "Loss of functional AGK impairs lipid signaling activity attributed to mitochondrial acylglycerol kinase.\n",
20089+
"pathophysiology": [
20090+
"AGK loss of function disrupts lipid signaling",
20091+
"TIM22 complex assembly defect",
20092+
"Reduced TIM22-mediated import of inner-membrane carrier proteins",
20093+
"Impaired mitochondrial one-carbon metabolism",
20094+
"Disrupted mitochondrial phospholipid metabolism",
20095+
"Oxidative phosphorylation deficiency"
20096+
],
20097+
"cell_types": [],
20098+
"cell_type_ids": [],
20099+
"biological_processes": [
20100+
"phosphatidic acid metabolic process",
20101+
"protein insertion into mitochondrial inner membrane",
20102+
"one-carbon metabolic process",
20103+
"phospholipid metabolic process",
20104+
"oxidative phosphorylation"
20105+
],
20106+
"phenotypes": [
20107+
"Hypertrophic cardiomyopathy",
20108+
"Developmental cataract",
20109+
"Myopathy",
20110+
"Lactic acidosis",
20111+
"Congestive heart failure",
20112+
"Aplasia of the ovary"
20113+
],
20114+
"phenotype_categories": [
20115+
"Cardiovascular",
20116+
"Ophthalmologic",
20117+
"Neuromuscular",
20118+
"Metabolic",
20119+
"Genitourinary"
20120+
],
20121+
"phenotype_ids": [
20122+
"HP:0001639",
20123+
"HP:0000519",
20124+
"HP:0003198",
20125+
"HP:0003128",
20126+
"HP:0001635",
20127+
"HP:0010463"
20128+
],
20129+
"frequencies": [
20130+
"VERY_FREQUENT",
20131+
"FREQUENT",
20132+
"VERY_RARE"
20133+
],
20134+
"genes": [
20135+
"AGK"
20136+
],
20137+
"treatments": [
20138+
"Coenzyme Q10 supplementation",
20139+
"Carnitine supplementation",
20140+
"B vitamin supplementation",
20141+
"ACE inhibitor therapy",
20142+
"Cardiac transplantation",
20143+
"Diuretic therapy",
20144+
"Levosimendan infusion"
20145+
],
20146+
"environmental": [],
20147+
"biochemical": [
20148+
"Lactate",
20149+
"N-terminal pro-brain natriuretic peptide (NT-proBNP)",
20150+
"3-hydroxybutyrate"
20151+
],
20152+
"source_file": "Sengers_syndrome.yaml",
20153+
"page_url": "../pages/disorders/Sengers_syndrome.html",
20154+
"num_phenotypes": 6,
20155+
"num_pathophysiology": 6,
20156+
"num_genes": 1,
20157+
"num_treatments": 7,
20158+
"causal_graph_edges": "0",
20159+
"causal_graph_longest_path": "0"
20160+
},
2008220161
{
2008320162
"name": "Shigellosis",
2008420163
"disease_id": "MONDO:0019345",

dashboard/comparison.png

-740 Bytes
Loading

dashboard/detail_7.png

1.2 KB
Loading

dashboard/detail_8.png

-1.17 KB
Loading

dashboard/detail_9.png

1.52 KB
Loading

dashboard/index.html

Lines changed: 40 additions & 34 deletions
Original file line numberDiff line numberDiff line change
@@ -110,25 +110,25 @@
110110
<div class="container">
111111
<header>
112112
<h1>QC Dashboard - Multi-File Comparison</h1>
113-
<p class="subtitle">277 files analyzed (sorted by compliance, lowest first)</p>
113+
<p class="subtitle">278 files analyzed (sorted by compliance, lowest first)</p>
114114
</header>
115115

116116
<section class="summary-cards">
117117
<div class="card">
118118
<h3>Files Analyzed</h3>
119-
<div class="value">277</div>
119+
<div class="value">278</div>
120120
</div>
121121
<div class="card">
122122
<h3>Average Compliance</h3>
123-
<div class="value bad">66.9%</div>
123+
<div class="value bad">67.2%</div>
124124
</div>
125125
<div class="card">
126126
<h3>Total Checks</h3>
127-
<div class="value">9397/14037</div>
127+
<div class="value">9480/14107</div>
128128
</div>
129129
<div class="card">
130130
<h3>Total Violations</h3>
131-
<div class="value bad">178</div>
131+
<div class="value bad">175</div>
132132
</div>
133133
</section>
134134

@@ -164,14 +164,14 @@ <h3>#6: IgA_Nephropathy.yaml (41.2%)</h3>
164164
<h3>#7: Pheochromocytoma_Paraganglioma.yaml (41.2%)</h3>
165165
<img src="detail_6.png" alt="Detail for Pheochromocytoma_Paraganglioma.yaml">
166166
</div><div class="detail-card">
167-
<h3>#8: Von_Hippel-Lindau_Disease.yaml (41.2%)</h3>
168-
<img src="detail_7.png" alt="Detail for Von_Hippel-Lindau_Disease.yaml">
167+
<h3>#8: Generalized_Anxiety_Disorder.yaml (41.3%)</h3>
168+
<img src="detail_7.png" alt="Detail for Generalized_Anxiety_Disorder.yaml">
169169
</div><div class="detail-card">
170-
<h3>#9: Generalized_Anxiety_Disorder.yaml (41.3%)</h3>
171-
<img src="detail_8.png" alt="Detail for Generalized_Anxiety_Disorder.yaml">
170+
<h3>#9: Peripheral_Artery_Disease.yaml (41.5%)</h3>
171+
<img src="detail_8.png" alt="Detail for Peripheral_Artery_Disease.yaml">
172172
</div><div class="detail-card">
173-
<h3>#10: Peripheral_Artery_Disease.yaml (41.5%)</h3>
174-
<img src="detail_9.png" alt="Detail for Peripheral_Artery_Disease.yaml">
173+
<h3>#10: Medulloblastoma_WNT_Activated.yaml (41.9%)</h3>
174+
<img src="detail_9.png" alt="Detail for Medulloblastoma_WNT_Activated.yaml">
175175
</div>
176176
</div>
177177
</section>
@@ -234,25 +234,19 @@ <h2>All Files (Sorted by Priority)</h2>
234234
<td>21/51</td>
235235
<td>1</td>
236236
</tr><tr class="priority-row">
237-
<td><span class="priority-badge">#8</span> <code>Von_Hippel-Lindau_Disease.yaml</code></td>
238-
<td class="bad">41.2%</td>
239-
<td>50.8%</td>
240-
<td>21/51</td>
241-
<td>1</td>
242-
</tr><tr class="priority-row">
243-
<td><span class="priority-badge">#9</span> <code>Generalized_Anxiety_Disorder.yaml</code></td>
237+
<td><span class="priority-badge">#8</span> <code>Generalized_Anxiety_Disorder.yaml</code></td>
244238
<td class="bad">41.3%</td>
245239
<td>51.8%</td>
246240
<td>19/46</td>
247241
<td></td>
248242
</tr><tr class="priority-row">
249-
<td><span class="priority-badge">#10</span> <code>Peripheral_Artery_Disease.yaml</code></td>
243+
<td><span class="priority-badge">#9</span> <code>Peripheral_Artery_Disease.yaml</code></td>
250244
<td class="bad">41.5%</td>
251245
<td>51.7%</td>
252246
<td>17/41</td>
253247
<td></td>
254-
</tr><tr class="">
255-
<td><code>Medulloblastoma_WNT_Activated.yaml</code></td>
248+
</tr><tr class="priority-row">
249+
<td><span class="priority-badge">#10</span> <code>Medulloblastoma_WNT_Activated.yaml</code></td>
256250
<td class="bad">41.9%</td>
257251
<td>53.2%</td>
258252
<td>18/43</td>
@@ -383,12 +377,6 @@ <h2>All Files (Sorted by Priority)</h2>
383377
<td>54.4%</td>
384378
<td>20/45</td>
385379
<td>1</td>
386-
</tr><tr class="">
387-
<td><code>Myasthenia_Gravis.yaml</code></td>
388-
<td class="bad">44.4%</td>
389-
<td>55.4%</td>
390-
<td>24/54</td>
391-
<td>1</td>
392380
</tr><tr class="">
393381
<td><code>RET_Rearranged_NSCLC.yaml</code></td>
394382
<td class="bad">44.4%</td>
@@ -455,12 +443,6 @@ <h2>All Files (Sorted by Priority)</h2>
455443
<td>56.4%</td>
456444
<td>19/42</td>
457445
<td>1</td>
458-
</tr><tr class="">
459-
<td><code>Alzheimers_Disease.yaml</code></td>
460-
<td class="bad">45.2%</td>
461-
<td>55.3%</td>
462-
<td>19/42</td>
463-
<td>1</td>
464446
</tr><tr class="">
465447
<td><code>Hereditary_Breast_and_Ovarian_Cancer_Syndrome.yaml</code></td>
466448
<td class="bad">45.2%</td>
@@ -797,6 +779,12 @@ <h2>All Files (Sorted by Priority)</h2>
797779
<td>60.0%</td>
798780
<td>23/46</td>
799781
<td>1</td>
782+
</tr><tr class="">
783+
<td><code>Myasthenia_Gravis.yaml</code></td>
784+
<td class="bad">50.0%</td>
785+
<td>61.4%</td>
786+
<td>27/54</td>
787+
<td></td>
800788
</tr><tr class="">
801789
<td><code>Pemphigus_Vulgaris.yaml</code></td>
802790
<td class="bad">50.0%</td>
@@ -875,6 +863,12 @@ <h2>All Files (Sorted by Priority)</h2>
875863
<td>61.1%</td>
876864
<td>18/34</td>
877865
<td>1</td>
866+
</tr><tr class="">
867+
<td><code>Von_Hippel-Lindau_Disease.yaml</code></td>
868+
<td class="bad">52.9%</td>
869+
<td>63.5%</td>
870+
<td>27/51</td>
871+
<td></td>
878872
</tr><tr class="">
879873
<td><code>Giant_Cell_Arteritis.yaml</code></td>
880874
<td class="bad">53.1%</td>
@@ -977,6 +971,12 @@ <h2>All Files (Sorted by Priority)</h2>
977971
<td>67.3%</td>
978972
<td>26/46</td>
979973
<td>1</td>
974+
</tr><tr class="">
975+
<td><code>Alzheimers_Disease.yaml</code></td>
976+
<td class="bad">57.1%</td>
977+
<td>67.9%</td>
978+
<td>24/42</td>
979+
<td></td>
980980
</tr><tr class="">
981981
<td><code>Dermatomyositis.yaml</code></td>
982982
<td class="bad">57.1%</td>
@@ -1835,6 +1835,12 @@ <h2>All Files (Sorted by Priority)</h2>
18351835
<td>100.0%</td>
18361836
<td>66/67</td>
18371837
<td></td>
1838+
</tr><tr class="">
1839+
<td><code>Sengers_syndrome.yaml</code></td>
1840+
<td class="good">98.6%</td>
1841+
<td>100.0%</td>
1842+
<td>69/70</td>
1843+
<td></td>
18381844
</tr><tr class="">
18391845
<td><code>Collagenous_Sprue.yaml</code></td>
18401846
<td class="good">98.7%</td>
@@ -1859,7 +1865,7 @@ <h2>All Files (Sorted by Priority)</h2>
18591865
</section>
18601866

18611867
<footer>
1862-
<p>Generated by <a href="https://github.com/linkml/linkml-data-qc">linkml-data-qc</a> on 2026-01-28 06:05</p>
1868+
<p>Generated by <a href="https://github.com/linkml/linkml-data-qc">linkml-data-qc</a> on 2026-01-28 16:51</p>
18631869
</footer>
18641870
</div>
18651871
</body>

dashboard/reports.json

Lines changed: 32 additions & 24 deletions
Original file line numberDiff line numberDiff line change
@@ -55,14 +55,6 @@
5555
"total_populated": 21,
5656
"violations": 1
5757
},
58-
{
59-
"file": "Von_Hippel-Lindau_Disease.yaml",
60-
"global_compliance": 41.17647058823529,
61-
"weighted_compliance": 50.79365079365079,
62-
"total_checks": 51,
63-
"total_populated": 21,
64-
"violations": 1
65-
},
6658
{
6759
"file": "Generalized_Anxiety_Disorder.yaml",
6860
"global_compliance": 41.30434782608695,
@@ -255,14 +247,6 @@
255247
"total_populated": 20,
256248
"violations": 1
257249
},
258-
{
259-
"file": "Myasthenia_Gravis.yaml",
260-
"global_compliance": 44.44444444444444,
261-
"weighted_compliance": 55.44554455445545,
262-
"total_checks": 54,
263-
"total_populated": 24,
264-
"violations": 1
265-
},
266250
{
267251
"file": "RET_Rearranged_NSCLC.yaml",
268252
"global_compliance": 44.44444444444444,
@@ -351,14 +335,6 @@
351335
"total_populated": 19,
352336
"violations": 1
353337
},
354-
{
355-
"file": "Alzheimers_Disease.yaml",
356-
"global_compliance": 45.23809523809524,
357-
"weighted_compliance": 55.34591194968554,
358-
"total_checks": 42,
359-
"total_populated": 19,
360-
"violations": 1
361-
},
362338
{
363339
"file": "Hereditary_Breast_and_Ovarian_Cancer_Syndrome.yaml",
364340
"global_compliance": 45.23809523809524,
@@ -807,6 +783,14 @@
807783
"total_populated": 23,
808784
"violations": 1
809785
},
786+
{
787+
"file": "Myasthenia_Gravis.yaml",
788+
"global_compliance": 50.0,
789+
"weighted_compliance": 61.386138613861384,
790+
"total_checks": 54,
791+
"total_populated": 27,
792+
"violations": 0
793+
},
810794
{
811795
"file": "Pemphigus_Vulgaris.yaml",
812796
"global_compliance": 50.0,
@@ -911,6 +895,14 @@
911895
"total_populated": 18,
912896
"violations": 1
913897
},
898+
{
899+
"file": "Von_Hippel-Lindau_Disease.yaml",
900+
"global_compliance": 52.94117647058824,
901+
"weighted_compliance": 63.49206349206349,
902+
"total_checks": 51,
903+
"total_populated": 27,
904+
"violations": 0
905+
},
914906
{
915907
"file": "Giant_Cell_Arteritis.yaml",
916908
"global_compliance": 53.125,
@@ -1047,6 +1039,14 @@
10471039
"total_populated": 26,
10481040
"violations": 1
10491041
},
1042+
{
1043+
"file": "Alzheimers_Disease.yaml",
1044+
"global_compliance": 57.14285714285714,
1045+
"weighted_compliance": 67.9245283018868,
1046+
"total_checks": 42,
1047+
"total_populated": 24,
1048+
"violations": 0
1049+
},
10501050
{
10511051
"file": "Dermatomyositis.yaml",
10521052
"global_compliance": 57.14285714285714,
@@ -2191,6 +2191,14 @@
21912191
"total_populated": 66,
21922192
"violations": 0
21932193
},
2194+
{
2195+
"file": "Sengers_syndrome.yaml",
2196+
"global_compliance": 98.57142857142858,
2197+
"weighted_compliance": 100.0,
2198+
"total_checks": 70,
2199+
"total_populated": 69,
2200+
"violations": 0
2201+
},
21942202
{
21952203
"file": "Collagenous_Sprue.yaml",
21962204
"global_compliance": 98.7012987012987,

pages/disorders/ALK-Rearranged_Non-Small_Cell_Lung_Cancer.html

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -1131,16 +1131,16 @@ <h2 class="card-title">Causal Graph</h2>
11311131

11321132
<div class="mermaid-container">
11331133
<pre class="mermaid">graph TD
1134+
ALK_Gene_Rearrangement[&#34;ALK Gene Rearrangement&#34;]
11341135
Constitutive_ALK_Signaling[&#34;Constitutive ALK Signaling&#34;]
11351136
Oncogene_Addiction[&#34;Oncogene Addiction&#34;]
1136-
ALK_Gene_Rearrangement[&#34;ALK Gene Rearrangement&#34;]
11371137

11381138
ALK_Gene_Rearrangement --&gt; Constitutive_ALK_Signaling
11391139
Constitutive_ALK_Signaling --&gt; Oncogene_Addiction
11401140

1141+
style ALK_Gene_Rearrangement fill:#dbeafe
11411142
style Constitutive_ALK_Signaling fill:#dbeafe
1142-
style Oncogene_Addiction fill:#dbeafe
1143-
style ALK_Gene_Rearrangement fill:#dbeafe</pre>
1143+
style Oncogene_Addiction fill:#dbeafe</pre>
11441144
</div>
11451145
</div>
11461146

0 commit comments

Comments
 (0)