Top networks, biological functions, and top canonical pathways (CBS and PCF) - gains and losses. Table S9 illustrates the IPA results including: The top five network functions, biological functions, and top canonical pathways. These results were obtained based on the gene lists (both gain and loss) of GISTIC focal peaks for input data based on both, CBS- and PCF-segmented data for each cancer type. Gray colored regions show the most significant functions/pathways at 5% FDR. (XLSX 15 kb
List of genes from the five different RT² Profiler™ PCR Array Human Systems used in this study, clas...
Relative frequencies of non-coding mutation contexts in different cancer types. (top panel) Three ca...
Summary of HSP subfamily Fold Change trends across PAM50 subtypes. Boxplot representing HSP subfamil...
Highest percentage of overlap between α (CBS) and γ (PCF) – gains and losses. Table S4A demonstrates...
PARADIGM analysis in The Cancer Genome Atlas (TCGA). Table S1. Pathways detected by gene set enrichm...
GISTIC focal peaks for female cancers – gains and losses. Table S3A shows the number of focal peaks ...
Ranked list of significant probe sets up and down-regulated in MCF-7/Twist cells, primary tumors, an...
The Cancer Genome Atlas (TCGA) Ingenuity pathway analysis (IPA) upstream regulators. Table S1., Tabl...
Focal peaks of GISTIC for female cancers based on CBS-segmented data (amplifications and deletions)....
Figure S2. Venn diagram of common genes number in ER-positive signatures from different platform. Co...
Table S2. Mean gene copy-number ratios of cancer associated genes across the cancer cell line panel....
Figure S2. Comparison of biological pathway between IBC and non-IBC in four subgroups. (a) The perce...
Table S3. Predicted breast cancer driver genes by the seven permutation models. Table S4. Predicted ...
Focal peaks of GISTIC for female cancers based on PCF-segmented input data (amplifications and delet...
Figure S1. Genes and function terms among signatures. A. Common genes discovered in signatures (uppe...
List of genes from the five different RT² Profiler™ PCR Array Human Systems used in this study, clas...
Relative frequencies of non-coding mutation contexts in different cancer types. (top panel) Three ca...
Summary of HSP subfamily Fold Change trends across PAM50 subtypes. Boxplot representing HSP subfamil...
Highest percentage of overlap between α (CBS) and γ (PCF) – gains and losses. Table S4A demonstrates...
PARADIGM analysis in The Cancer Genome Atlas (TCGA). Table S1. Pathways detected by gene set enrichm...
GISTIC focal peaks for female cancers – gains and losses. Table S3A shows the number of focal peaks ...
Ranked list of significant probe sets up and down-regulated in MCF-7/Twist cells, primary tumors, an...
The Cancer Genome Atlas (TCGA) Ingenuity pathway analysis (IPA) upstream regulators. Table S1., Tabl...
Focal peaks of GISTIC for female cancers based on CBS-segmented data (amplifications and deletions)....
Figure S2. Venn diagram of common genes number in ER-positive signatures from different platform. Co...
Table S2. Mean gene copy-number ratios of cancer associated genes across the cancer cell line panel....
Figure S2. Comparison of biological pathway between IBC and non-IBC in four subgroups. (a) The perce...
Table S3. Predicted breast cancer driver genes by the seven permutation models. Table S4. Predicted ...
Focal peaks of GISTIC for female cancers based on PCF-segmented input data (amplifications and delet...
Figure S1. Genes and function terms among signatures. A. Common genes discovered in signatures (uppe...
List of genes from the five different RT² Profiler™ PCR Array Human Systems used in this study, clas...
Relative frequencies of non-coding mutation contexts in different cancer types. (top panel) Three ca...
Summary of HSP subfamily Fold Change trends across PAM50 subtypes. Boxplot representing HSP subfamil...