Cancer proteogenomics: current impact and future prospects

DR Mani, K Krug, B Zhang, S Satpathy… - Nature Reviews …, 2022 - nature.com
Genomic analyses in cancer have been enormously impactful, leading to the identification of
driver mutations and development of targeted therapies. But the functions of the vast majority …

Molecular classification of breast cancer

JYS Tsang, MT Gary - Advances in anatomic pathology, 2020 - journals.lww.com
Cancer classification aims to provide an accurate diagnosis of the disease and prediction of
tumor behavior to facilitate oncologic decision making. Traditional breast cancer …

Re-definition of claudin-low as a breast cancer phenotype

C Fougner, H Bergholtz, JH Norum, T Sørlie - Nature communications, 2020 - nature.com
The claudin-low breast cancer subtype is defined by gene expression characteristics and
encompasses a remarkably diverse range of breast tumors. Here, we investigate genomic …

Breast cancer quantitative proteome and proteogenomic landscape

HJ Johansson, F Socciarelli, NM Vacanti… - Nature …, 2019 - nature.com
In the preceding decades, molecular characterization has revolutionized breast cancer (BC)
research and therapeutic approaches. Presented herein, an unbiased analysis of breast …

Reprogrammed transsulfuration promotes basal-like breast tumor progression via realigning cellular cysteine persulfidation

K Erdélyi, T Ditrói, HJ Johansson… - Proceedings of the …, 2021 - National Acad Sciences
Basal-like breast cancer (BLBC) is the most aggressive subtype of breast tumors with poor
prognosis and limited molecular-targeted therapy options. We show that BLBC cells have a …

[HTML][HTML] Patient similarity for precision medicine: A systematic review

E Parimbelli, S Marini, L Sacchi, R Bellazzi - Journal of biomedical …, 2018 - Elsevier
Evidence-based medicine is the most prevalent paradigm adopted by physicians. Clinical
practice guidelines typically define a set of recommendations together with eligibility criteria …

[HTML][HTML] Machine learning in oncology: methods, applications, and challenges

D Bertsimas, H Wiberg - JCO clinical cancer informatics, 2020 - ncbi.nlm.nih.gov
Machine learning (ML) has the potential to transform oncology and, more broadly, medicine.
1 The introduction of ML in health care has been enabled by the digitization of patient data …

RNA sequencing-based single sample predictors of molecular subtype and risk of recurrence for clinical assessment of early-stage breast cancer

J Staaf, J Häkkinen, C Hegardt, LH Saal, S Kimbung… - NPJ breast …, 2022 - nature.com
Multigene assays for molecular subtypes and biomarkers can aid management of early
invasive breast cancer. Using RNA-sequencing we aimed to develop single-sample …

Protein biomarkers for subtyping breast cancer and implications for future research

C Mueller, A Haymond, JB Davis… - Expert review of …, 2018 - Taylor & Francis
Introduction: Breast cancer subtypes are currently defined by a combination of morphologic,
genomic, and proteomic characteristics. These subtypes provide a molecular portrait of the …

[HTML][HTML] Subtype and cell type specific expression of lncRNAs provide insight into breast cancer

SS Bjørklund, MR Aure, J Häkkinen… - Communications …, 2022 - nature.com
Long non-coding RNAs (lncRNAs) are involved in breast cancer pathogenesis through
chromatin remodeling, transcriptional and post-transcriptional gene regulation. We report …