Limits...
Integrative genomic and transcriptomic characterization of papillary carcinomas of the breast

View Article: PubMed Central - PubMed

ABSTRACT

Papillary carcinoma (PC) is a rare type of breast cancer, which comprises three histologic subtypes: encapsulated PC (EPC), solid PC (SPC) and invasive PC (IPC). Microarray-based gene expression and Affymetrix SNP 6.0 gene copy number profiling, and RNA-sequencing revealed that PCs are luminal breast cancers that display transcriptomic profiles distinct from those of grade- and estrogen receptor (ER)-matched invasive ductal carcinomas of no special type (IDC-NSTs), and that the papillary histologic pattern is unlikely to be underpinned by a highly recurrent expressed fusion gene or a highly recurrent expressed mutation. Despite displaying similar patterns of gene copy number alterations, significant differences in the transcriptomic profiles of EPCs, SPCs and IPCs were found, and may account for their different histologic features.

No MeSH data available.


Related in: MedlinePlus

Unsupervised hierarchical clustering of gene expression data of 16 papillary carcinomas and 16 histologic grade- and ER-matched invasive ductal carcinomas of no special type. A) Clustering was performed with 2310 probes using Ward's algorithm and Pearson correlation as distance metric. B) Clustering was performed with 2310 probes using complete-linkage algorithm and Pearson correlation as distance metric. IDC-NST, invasive ductal carcinoma of no special type; PAM50, intrinsic molecular subtype using the microarray version of the PAM50 approach; PC, papillary carcinoma.
© Copyright Policy
Related In: Results  -  Collection


getmorefigures.php?uid=PMC5037246&req=5

fig1: Unsupervised hierarchical clustering of gene expression data of 16 papillary carcinomas and 16 histologic grade- and ER-matched invasive ductal carcinomas of no special type. A) Clustering was performed with 2310 probes using Ward's algorithm and Pearson correlation as distance metric. B) Clustering was performed with 2310 probes using complete-linkage algorithm and Pearson correlation as distance metric. IDC-NST, invasive ductal carcinoma of no special type; PAM50, intrinsic molecular subtype using the microarray version of the PAM50 approach; PC, papillary carcinoma.

Mentions: Unsupervised hierarchical clustering of PCs and grade- and ER-matched IDC-NSTs revealed that PCs preferentially clustered together (two-tailed Fisher's exact test, p-value = 0.002; Figure 1), irrespective of the clustering algorithm employed. These data suggest that although PCs and grade- and ER-matched IDC-NSTs are similar at the gene copy number level (Duprez et al., 2012), their global patterns of gene expression are distinct.


Integrative genomic and transcriptomic characterization of papillary carcinomas of the breast
Unsupervised hierarchical clustering of gene expression data of 16 papillary carcinomas and 16 histologic grade- and ER-matched invasive ductal carcinomas of no special type. A) Clustering was performed with 2310 probes using Ward's algorithm and Pearson correlation as distance metric. B) Clustering was performed with 2310 probes using complete-linkage algorithm and Pearson correlation as distance metric. IDC-NST, invasive ductal carcinoma of no special type; PAM50, intrinsic molecular subtype using the microarray version of the PAM50 approach; PC, papillary carcinoma.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC5037246&req=5

fig1: Unsupervised hierarchical clustering of gene expression data of 16 papillary carcinomas and 16 histologic grade- and ER-matched invasive ductal carcinomas of no special type. A) Clustering was performed with 2310 probes using Ward's algorithm and Pearson correlation as distance metric. B) Clustering was performed with 2310 probes using complete-linkage algorithm and Pearson correlation as distance metric. IDC-NST, invasive ductal carcinoma of no special type; PAM50, intrinsic molecular subtype using the microarray version of the PAM50 approach; PC, papillary carcinoma.
Mentions: Unsupervised hierarchical clustering of PCs and grade- and ER-matched IDC-NSTs revealed that PCs preferentially clustered together (two-tailed Fisher's exact test, p-value = 0.002; Figure 1), irrespective of the clustering algorithm employed. These data suggest that although PCs and grade- and ER-matched IDC-NSTs are similar at the gene copy number level (Duprez et al., 2012), their global patterns of gene expression are distinct.

View Article: PubMed Central - PubMed

ABSTRACT

Papillary carcinoma (PC) is a rare type of breast cancer, which comprises three histologic subtypes: encapsulated PC (EPC), solid PC (SPC) and invasive PC (IPC). Microarray-based gene expression and Affymetrix SNP 6.0 gene copy number profiling, and RNA-sequencing revealed that PCs are luminal breast cancers that display transcriptomic profiles distinct from those of grade- and estrogen receptor (ER)-matched invasive ductal carcinomas of no special type (IDC-NSTs), and that the papillary histologic pattern is unlikely to be underpinned by a highly recurrent expressed fusion gene or a highly recurrent expressed mutation. Despite displaying similar patterns of gene copy number alterations, significant differences in the transcriptomic profiles of EPCs, SPCs and IPCs were found, and may account for their different histologic features.

No MeSH data available.


Related in: MedlinePlus