Mouse SIRV and simulated data used in the IsoQuant publication
- 1. University of Helsinki
- 2. UCL Queen Square Motor Neuron Disease Centre, Department of Neuromuscular Diseases, UCL Queen Square Institute of Neurology, UCL, London, UK
- 3. Tri-Institutional Computational Biology & Medicine, Weill Cornell Medicine, New York, NY, USA
- 4. Brain and Mind Research Institute, Weill Cornell Medicine, New York, NY, USA
Description
This dataset contain main simulated and SIRV sequencing data used in the IsoQuant publication.
- Reduced mouse GENCODE vM26 annotation: 15% of expressed isoforms removed, expression profile based on real mouse brain sequencing data; also contains GTF with expressed transcripts.
- Mouse PacBio simulated data: 6 million reads generated with IsoSeqSim, 1.4% error rate. Provided as a sorted BAM file, reads were mapped to GRCm39 genome using minimap v2.18.
- Mouse ONT R10.4 simulated data: 30 million read generated with NanoSim, 2.8% error rate. Provided as a sorted BAM file, reads were mapped to GRCm39 genome using minimap v2.18.
- Mouse ONT R9.4 simulated data: 30 million read generated with NanoSim, 15.9% error rate. Provided as a sorted BAM file, reads were mapped to GRCm39 genome using minimap v2.18.
- Lexogen SIRV Set4 sequenced on ONT MinIon with R10.4 chemistry. Provided as a sorted BAM file, reads were mapped to SIRV reference using minimap v2.18. This data was used in the IsoQuant publication.
- Lexogen SIRV Set4 sequenced on ONT MinIon with R9.4 chemistry, filtered >=Q12. Provided as a sorted BAM file, reads were mapped to SIRV reference using minimap v2.18. This data was NOT used in the IsoQuant publication.
- SIRV reference genome and reduced annotation, also available at Lexogen download page.
Files
Lexogen.SIRV_Set4.reference.zip
Files
(35.7 GB)
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