623bc1182990ea8ca9c9e219906ef1a1c4a799c3 gperez2 Mon Feb 10 18:07:31 2025 -0800 Fixing longLabel for SpliceVarDB and keeping 'SpliceVarDB' string consistent in the track description page, refs #34424 diff --git src/hg/makeDb/trackDb/human/spliceImpactSuper.html src/hg/makeDb/trackDb/human/spliceImpactSuper.html index 902365f176d..8af532fbc7e 100644 --- src/hg/makeDb/trackDb/human/spliceImpactSuper.html +++ src/hg/makeDb/trackDb/human/spliceImpactSuper.html @@ -13,31 +13,31 @@ range of experimental protocols. Genes and variant locations were obtained using GENCODE v44. Splice regions were calculated as specific distances from the closest canonical exon, including 5' and 3' untranslated regions (UTRs). The database is available at <a target=_blank href="https://splicevardb.org">splicevardb.org</a>.</p> <h2>Display Conventions and Configuration</h2> <h3>SpliceVarDB</h3> <p>According to the strength of their supporting evidence, variants were classified as "splice-altering" (~25%), "not splice-altering" (~25%), and "low-frequency splice-altering" (~50%), which correspond to weak or indeterminate evidence of spliceogenicity. 55% of the splice-altering variants in SpliceVarDB are outside the canonical splice sites (5.6% are deep intronic). The data is shown as lollipop plots that can be clicked, -the details page then shows a link to SpliceVarDb with full details. +the details page then shows a link to SpliceVarDB with full details. </p> <p>The classification thresholds primarily follow those established by the original study. However, most studies only defined criteria for splice-altering variants and did not define criteria for variants that resulted in normal splicing. The authors implemented stringent thresholds to define the normal category and ensure a high-quality set of control variants. Variants that did not meet these criteria were classified as low-frequency splice-altering variants with a wide range of sub-optimal scores. Variants that fell between the normal and splice-altering classifications were placed into a low-frequency splice-altering category. In situations where a variant was validated multiple times, if at least one validation returned splice-altering and another returned normal, the "conflicting" category was applied. </p> <P>