Statistical and Evolutionary Analysis of Sequenced DNA from Breast Cancer FFPE Specimens.

ABSTRACT:

Background

Despite the introduction of instant freezing of tumor specimens, formalin-fixed paraffin-embedded (FFPE) blocks of tissue are still commonplace in clinical practice and constitute an important reference for genetic epidemiology of cancer. We carried out a study of a collection of breast tumors paired with lymph-node metastases and analyzed using advanced computational methods, to determine how much information can be obtained from mid-depth whole-exome bulk DNA sequencing.

Methods

We gathered 15 paired (primary and an involved lymph node) excised breast tumors of different molecular subtypes (HER2+, triple negative, luminal A and luminal B HER2-), from the National Research Institute of Oncology, Krakow (Poland) Branch. FFPE specimens contained typical artifacts,

SUBMITTER: Kurpas MK 

PROVIDER: S-EPMC12622042 | biostudies-literature | 2025 Oct

REPOSITORIES: biostudies-literature