Stable feature selection for biomarker discovery
Feature selection techniques have been used as the workhorse in biomarker discovery
applications for a long time. Surprisingly, the stability of feature selection with respect to …
applications for a long time. Surprisingly, the stability of feature selection with respect to …
G2M cell cycle pathway score as a prognostic biomarker of metastasis in estrogen receptor (ER)-positive breast cancer
The vast majority of breast cancer death is a result of metastasis. Thus, accurate
identification of patients who are likely to have metastasis is expected to improve survival …
identification of patients who are likely to have metastasis is expected to improve survival …
The E2F pathway score as a predictive biomarker of response to neoadjuvant therapy in ER+/HER2− breast cancer
E2F transcription factors play critical roles in the cell cycle. Therefore, their activity is
expected to reflect tumor aggressiveness and responsiveness to therapy. We scored 3905 …
expected to reflect tumor aggressiveness and responsiveness to therapy. We scored 3905 …
Predicting and affecting response to cancer therapy based on pathway-level biomarkers
R Ben-Hamo, A Jacob Berger, N Gavert… - Nature …, 2020 - nature.com
Identifying robust, patient-specific, and predictive biomarkers presents a major obstacle in
precision oncology. To optimize patient-specific therapeutic strategies, here we couple …
precision oncology. To optimize patient-specific therapeutic strategies, here we couple …
Comprehensive and critical evaluation of individualized pathway activity measurement tools on pan-cancer data
Motivation Biological pathways are extensively used for the analysis of transcriptome data to
characterize biological mechanisms underlying various phenotypes. There are a number of …
characterize biological mechanisms underlying various phenotypes. There are a number of …
Enhanced DNA repair pathway is associated with cell proliferation and worse survival in hepatocellular carcinoma (HCC)
Simple Summary We studied the relationship between enhancement of DNA repair and
cancer aggressiveness, tumor immune microenvironment, and patient survival in 749 …
cancer aggressiveness, tumor immune microenvironment, and patient survival in 749 …
Enhanced immune response outperform aggressive cancer biology and is associated with better survival in triple-negative breast cancer
Although the value of tumor-infiltrating lymphocytes is well known, the clinical relevance of
an increased immune response, specifically in breast cancer, has not been investigated …
an increased immune response, specifically in breast cancer, has not been investigated …
Identifying dysregulated pathways in cancers from pathway interaction networks
Background Cancers, a group of multifactorial complex diseases, are generally caused by
mutation of multiple genes or dysregulation of pathways. Identifying biomarkers that can …
mutation of multiple genes or dysregulation of pathways. Identifying biomarkers that can …
Pathway-based classification of cancer subtypes
Background Molecular markers based on gene expression profiles have been used in
experimental and clinical settings to distinguish cancerous tumors in stage, grade, survival …
experimental and clinical settings to distinguish cancerous tumors in stage, grade, survival …
Cancer subtype classification and modeling by pathway attention and propagation
Motivation Biological pathway is an important curated knowledge of biological processes.
Thus, cancer subtype classification based on pathways will be very useful to understand …
Thus, cancer subtype classification based on pathways will be very useful to understand …