standardize on pubmed

content/03.results.md

@@ -203,7 +203,7 @@ We suggest this classifier could be generally applied to infer _TP53_ function i
 We used gene expression data to predict telomerase activity using EXpression-based Telomerase ENzymatic activity Detection (`EXTEND`) [@doi:10.1038/s41467-020-20474-9] as a surrogate measure of malignant potential [@doi:10.1038/s41467-020-20474-9; @doi:10.1093/carcin/bgp268], where higher `EXTEND` scores indicate higher telomerase activity.
 Aggressive tumors such as DMGs, other HGGs, and MB had high `EXTEND` scores (**Figure {@fig:Fig4}D**), and low-grade lesions such as schwannomas, GNGs, DNETs, and other LGGs had among the lowest scores (**Table S3**), supporting previous reports that aggressive tumor phenotypes have higher telomerase activity [@doi:10.1007/s13277-016-5045-7; @doi:10.1038/labinvest.3700710; @doi:10.1007/s12032-016-0736-x; @doi:10.1111/j.1750-3639.2010.00372.x].
 While `EXTEND` scores were not significantly higher in tumors with _TERT_ promoter (TERTp) mutations (N = 6; Wilcoxon p-value = 0.1196), scores were significantly correlated with _TERC_ (R = 0.619, p < 0.01) and _TERT_ (R = 0.491, p < 0.01) log2 FPKM expression values (**Figure {@fig:S5}B-C**).
-Since catalytically-active telomerase requires full-length _TERT_, _TERC_, and certain accessory proteins [@pmid:9751630], we expect that `EXTEND` scores may not be exclusively correlated with _TERT_ alterations and expression.
+Since catalytically-active telomerase requires full-length _TERT_, _TERC_, and certain accessory proteins [@pubmed:9751630], we expect that `EXTEND` scores may not be exclusively correlated with _TERT_ alterations and expression.
 
 #### Hypermutant tumors share mutational signatures and have dysregulated **_TP53_**
 

content/manual-references.json

@@ -363,7 +363,7 @@
     }
   },
   {
-    "id": "pmid:26389418",
+    "id": "pubmed:26389418",
     "type": "chapter",
     "title": "Childhood Medulloblastoma and Other Central Nervous System Embryonal Tumors Treatment (PDQ®): Health Professional Version",
     "container-title": "PDQ Cancer Information Summaries",