Supplementary Figures from The History of Chromosomal Instability in Genome-Doubled Tumors

Le résumé fourni par la source

Supplementary Figures S1 to S52 S1 WGD frequencies across cancer types and stage. S2 Effect of WGD constraint on timing accuracy. S3 Measuring timing accuracy on simulated data. S4-7 Measuring timing accuracy on simulated data by copy number state. S8-11 Measuring inferred route probabilities on simulated data. S12 Timing of gains in multi-region tumors. S13-14 Difference in timing between different gain routes. S15 Non-parsimony in copy number gain evolution. S16 Non-parsimony by copy number state. S17-18 Calibrating a penalty on non-parsimony. S19 Clear-cell sample gain timing. S20 Gain route agreement within chromosomes. S21 Probability of pre-WGD gains in different chromosomes and copy number states. S22 Distribution of gain timing by major copy number. S23 Single-cell copy number profiles of an undifferentiated sarcoma. S24 Distribution of gain rates relative to WGD by cancer type. S25 Distribution of gain rates relative to WGD compared to simulations. S26 Example sample gain timing posterior. S27 Combined distribution over gain timing by WGD status. S28 The timing of gains relative to WGD. S29 The timing of gains relative to WGD by cancer type. S30 Proportion of copy number events post-WGD. S31 The relationship between genome gained post-WGD and WGD timing by cancer type. S32 The relationship between genome gained pre-WGD and WGD timing by cancer type. S33 The relationship between fraction of genome lost pre and post-WGD and WGD timing by cancer type. S34 Punctuated gains in WGD tumors. S35 Association between chromothripsis and punctuated gains. S36 Genomic features of punctuated gains. S37 Frequency of arm gains pre and post-WGD and in non-WGD tumors. S38 Frequency of arm gains pre and post-WGD and in non-WGD tumors by cancer type. S39 Frequency of arm losses pre and post-WGD and in non-WGD tumors by cancer type. S40 Effect of oncogene and tumor suppressor gene density on arm gain rates. S41 Effect of oncogene and tumor suppressor gene density on arm loss rates. S42-46 Pan-genome frequencies of pre and post-WGD gains by cancer type. S47-49 Pan-genome frequencies of pre and post-WGD losses by cancer type. S50 The effect of NRPCC and mutation count on gain timing inference. S51 WGD status calling in GRITIC. S52 The effect of the non-parsimony penalty on event timing.

Ce résumé expose les affirmations des auteurs. BNTIC ne l’interprète pas comme une validation indépendante des résultats.