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| Item Type: | Dataset |
|---|---|
| Title: | Supplementary Tables 1-24 from Spatial–Temporal Diversity of Extrachromosomal DNA Shapes Urothelial Carcinoma Evolution and the Tumor Immune Microenvironment |
| Creators Name: | Lv, Wei, Zeng, Yuche, Li, Conghui, Liang, Yuan, Tao, Huiying, Zhu, Yanfen, Sui, Xiaolong, Li, Yue, Jiang, Shiqi, Gao, Qingqing, Rodriguez-Fos, Elias, Prasad, Gino, Wang, Yuanmei, Zhou, Run, Xu, Zhe, Pan, Xiaoguang, Chen, Linlin, Xiang, Xi, Teng, Huajing, Sun, Chaoyang, Li, Wei, Qin, Tianyu, Dong, Wei, Li, Yongwei, Lan, Xun, Li, Xuesong, Lin, Lin, Bolund, Lars, Yang, Huanming, Verhaak, Roel G.W., Faltas, Bishoy M., Hansen, Jacob B., Wu, Sihan, Mischel, Paul S., Henssen, Anton G., Bafna, Vineet, Luebeck, Jens, Regenberg, Birgitte, Luo, Yonglun, Lin, Chunhua and Han, Peng |
| Abstract: | Table_S1. Study cohort. Table_S2. The sample composition of each dataset. Table_S3. Patient information. Table_S4. Whole genome sequencing (WGS) datasets. 1,411 UC whole genomes. Table_S5. Whole exome sequencing (WES) datasets. Table_S6. RNA sequencing (RNA-seq) datasets. Table_S7. Circle-seq datasets. Table_S8. Single-cell RNA-seq (scRNA-seq) datasets. Table_S9. Amplicon classification. Table_S10. Amplicon similarity scores. Table_S11. ecDNA prevalence in human cancers. Table_S12. Genomic and sequence features of amplicons. Table_S13. Oncogene list. Table_S14. Genes encoded on all focal amplifications. Table_S15. ecDNA status and CNV ITH in tumor multi-region sampling cohort. Table_S16. Diver gene alterations in ecDNA- and ecDNA+ tumors. Table_S17. Summary of Single-cell RNA-seq (scRNA-seq) data. Table_S18. IHC evaluation of CD45 in 19 tumors with scRNA-seq data. Table_S19. Signature genes of 50 robust NMF programs. Table_S20. Pathway enriched in each NMF program. Table_S21. Top 30 signature genes of tumor meta-program. Table_S22. Differential pathways of malignant cells between ecDNA- and ecDNA+ tumors. Table_S23. Gene signature matrix for deconvolution analysis of bulk RNA-seq data. Table_S24. Software. |
| Keywords: | Genitourinary Cancers, Bladder Cancer, Genome Biology, Tumor Heterogeneity |
| Source: | Figshare |
| Publisher: | Figshare |
| Date: | 3 June 2025 |
| Official Publication: | https://doi.org/10.1158/2159-8290.29221342 |
| Related to: |
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