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agenda [2019/07/24 12:46] plabaj |
agenda [2019/07/24 17:37] (current) plabaj [Gunnar Rätsch, PhD] |
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| //Head of Biomedical Informatics at ETH Zurich, Switzerland//\\ | //Head of Biomedical Informatics at ETH Zurich, Switzerland//\\ | ||
| **Transcriptome Alterations in Cancer:Challenges and Opportunities** -- Keynote | **Transcriptome Alterations in Cancer:Challenges and Opportunities** -- Keynote | ||
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| + | I will cover two recent works related to transcriptive aberrations in cancer. In the first part I will describe a comprehensive analysis of alternative splicing across 32 TCGA cancer types from 8,705 patients. We detect alternative splicing events and tumor variants by reanalyzing RNA and whole-exome sequencing data. Tumors have up to 30% more alternative splicing events than normal samples. Association analysis of somatic variants with alternative splicing events confirmed known trans-associations with variants in SF3B1 and U2AF1 and identified additional trans-acting variants. Many tumors have thousands of alternative splicing events not detectable in normal samples; on average, we identified ≈930 exon-exon junctions (“neojunctions”) in tumors not typically found in GTEx normals. I will discuss possible implications for immunotherapies. In the second part, I will discuss an analysis within the contact of the ICGC/PCAWG project. Here we analyzed different transcriptome alterations, including expression, allelic imbalance, RNA-editing, alternative splicing and perform a novel recurrence analysis across RNA alterations that give rise to new insights into oncogenic processes. | ||
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| //About the speaker//: **Gunnar Rätsch** leads the Biomedical Informatics group at the Institute of Machine Learning at | //About the speaker//: **Gunnar Rätsch** leads the Biomedical Informatics group at the Institute of Machine Learning at | ||
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