Given prior knowledge of cancer-types/subtypes, CoMEt analyzes alterations and subtypes simultaneously, allowing the discovery of mutually exclusive alterations across cancer types, while avoiding the identification of spurious mutually exclusive sets of (sub)type-specfic mutations. We demonstrate that CoMEt...
using the Parzen window method (Eq.13)18. Then, a pan-cancer analysis is conducted to analyze potential associations between LAM-containing LIRCPs and 37 major cancer types/subtypes (Fig.1).
(2) the signatures of cfDNA aberrations from diverse cancer types, subtypes, stages and etiologies are heterogeneous; and (3) the currently available sample sizes are small compared to the diversity of diseases and the patient population (age, gender, ethnicity, and comorbidity), especially for ...
They found that some types were defined by their anatomic location and other cancers from the same organ system, such as gastric, colon and rectal cancers, also shared molecular similarities. However, some organ sites had a broad diversity in molecular subtypes, such as the kidney. Therefore, a...
spatial distribution characteristics of CAFs and further dissect the cellular communication between CAFs and TME. In this study, we have delineated the landscape of CAFs in six common cancer types and described the unique functional features of these subtypes. We also analyzed scRNA-seq data of ...
1). In their simplest form, deletions and inversions were found to be the most common SV types, while consistent with other PCa studies, we observed a low frequency of insertion events (Additional file 1: Fig. S2). Only 15 tumours (8.3%) presented with at least one insertion, which may...
1B), which were further annotated to 8 cell types based on marker genes expression (Fig. 1C, D). The top 5 highly expressed genes in each cell type were shown in Fig. 1E. It was worth noting that the cell composition of TME was highly heterogeneous, and the proportion of 8 cell ...
link transcription factors to target genes that are conditionally activated in specific types or subtypes of cancer. their results have suggested that alterations in pathways that active some transcription factors might be responsible for the observed gene deregulation and cancer pathogenesis. segal et al...
of clinically healthy women of diverse genetic ancestry, a global breast single-nucleus atlas was developed that identifies distinct cell types and ancestry-level differences linked to epithelial and fibroblast cell states, which in turn could influence disease incidence, molecular subtypes and progression...
Current evidence indicate that cancer-associated fibroblasts (CAFs) play an important role in prostate cancer (PCa) development and progression. In this study, we identified CAF-related molecular subtypes and prognostic index for PCa patients undergoing