Mouse SIRV and simulated data used in the IsoQuant publication

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dc.contributor.affiliationUniversity of Helsinki - Prjibelski Andrey
dc.contributor.affiliationUCL Queen Square Motor Neuron Disease Centre, Department of Neuromuscular Diseases, UCL Queen Square Institute of Neurology, UCL, London, UK - Mikheenko Alla
dc.contributor.affiliationTri-Institutional Computational Biology & Medicine, Weill Cornell Medicine, New York, NY, USA - Anoushka Joglekar
dc.contributor.affiliationBrain and Mind Research Institute, Weill Cornell Medicine, New York, NY, USA - Julien Jarroux
dc.contributor.affiliationBrain and Mind Research Institute, Weill Cornell Medicine, New York, NY, USA - Hagen U. Tilgner
dc.contributor.authorPrjibelski Andrey
dc.contributor.authorMikheenko Alla
dc.contributor.authorAnoushka Joglekar
dc.contributor.authorJulien Jarroux
dc.contributor.authorHagen U. Tilgner
dc.date.accessioned2025-03-24T15:23:16Z
dc.date.issued2023-02-06
dc.date.issued2023-02-06
dc.descriptionThis 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.
dc.identifierhttps://doi.org/10.5281/zenodo.7611877
dc.identifier.urihttps://hydatakatalogi-test-24.it.helsinki.fi/handle/123456789/11071
dc.rightsOpen
dc.rights.licensecc-by-4.0
dc.subjectRNA-Seq
dc.subjectlong-read sequencing
dc.subjectsimulated data
dc.subjectSIRV
dc.subjectONT
dc.subjectNanopore
dc.subjectPacBio
dc.titleMouse SIRV and simulated data used in the IsoQuant publication
dc.typedataset
dc.typedataset

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