Table S5. LINCS perturbation experiments used. (TXT 1054 kb

Andreas Beyer (58396)

Betty Friedrich (479506)

Michael Seifert (188260)

PubMed

Table S4. Patient samples used. (XLS 278 kb

FigShare

Additional file 5 of Importance of rare gene copy number alterations for personalized tumor characterization and survival analysis

It has proven exceedingly difficult to ascertain rare copy number alterations (CNAs) that may have strong effects in individual tumors. We show that a regulatory network inferred from gene expression and gene copy number data of 768 human cancer cell lines can be used to quantify the impact of patient-specific CNAs on survival signature genes. A focused analysis of tumors from six tissues reveals that rare patient-specific gene CNAs often have stronger effects on signature genes than frequent gene CNAs. Further comparison to a related network-based approach shows that the integration of indirectly acting gene CNAs significantly improves the survival analysis

Seifert, Michael

Friedrich, Betty

Beyer, Andreas

Kölner UniversitätsPublikationsServer

Importance of rare gene copy number alterations for personalized tumor characterization and survival analysis

Table S10. Germ-line CNV sites used. (TXT 17 kb

Additional file 11 of Importance of rare gene copy number alterations for personalized tumor characterization and survival analysis

Table S7. Gene CNA rates and survival impacts. (XLS 4259 kb

Additional file 8 of Importance of rare gene copy number alterations for personalized tumor characterization and survival analysis

Table S2. CCTN gene interaction table. (TXT 966 kb

Additional file 3 of Importance of rare gene copy number alterations for personalized tumor characterization and survival analysis

Table S6. Predicted TCGA cohort-specific survival signature genes. (XLS 58 kb

Additional file 7 of Importance of rare gene copy number alterations for personalized tumor characterization and survival analysis

Table S8. Gene annotations table. (XLS 3420 kb

Additional file 9 of Importance of rare gene copy number alterations for personalized tumor characterization and survival analysis

Michael Seifert

Betty Friedrich

Andreas Beyer

Crossref