d6b429ab3e6d240e3ae97c85d1ec15b049ea237b gperez2 Tue Oct 14 14:53:11 2025 -0700 Edits to the Credits section regarding SpliceAI, refs #35100 diff --git src/hg/makeDb/trackDb/human/spliceImpactSuper.html src/hg/makeDb/trackDb/human/spliceImpactSuper.html index ea2669ce8bd..e0ab97db475 100644 --- src/hg/makeDb/trackDb/human/spliceImpactSuper.html +++ src/hg/makeDb/trackDb/human/spliceImpactSuper.html @@ -229,33 +229,35 @@
bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg19/splicevardb/SVADB.bb -chrom=chr21 -start=0 -end=100000000 stdout
bigWigToBedGraph -chrom=chr1 -start=100000 -end=100500 http://hgdownload.soe.ucsc.edu/gbdb/hg38/bbi/spliceAi/wildtype/spliceAiAcceptorMinus.bw stdout

These tools can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here.

Credits

Thanks to Illumina for making available SpliceAI, both the model and the precomputed data files.

Thanks to Illumina for making SpliceAI available, both the model and the precomputed data files.

Thanks to Francois Lecoquierre from the University of Oxford, Jean-Madeleine de Sainte Agathe from Institut Pasteur Paris and Michael Hiller from the Senckenberg Museum Frankfurt for suggesting and then creating the SpliceAI wildtype annotations.

Thanks to Francois Lecoquierre from the University of Oxford, Jean-Madeleine de Sainte Agathe +from Institut Pasteur Paris, and Michael Hiller from the Senckenberg Museum Frankfurt for +suggesting and then creating the SpliceAI Wildtype annotations.

Thanks to Nils Wagner for helpful comments and suggestions for the AbSplice track.

Thanks to the SpliceVarDB team for converting the data into our data formats.

References

Jaganathan K, Kyriazopoulou Panagiotopoulou S, McRae JF, Darbandi SF, Knowles D, Li YI, Kosmicki JA, Arbelaez J, Cui W, Schwartz GB et al. Predicting Splicing from Primary Sequence with Deep Learning. Cell. 2019 Jan 24;176(3):535-548.e24. PMID: 30661751