Immune checkpoint inhibition for hypermutant glioblastoma multiforme resulting from germline biallelic mismatch repair deficiency

…, BB Campbell, D Merico, R De Borja… - Journal of clinical …, 2016 - ascopubs.org
Purpose Recurrent glioblastoma multiforme (GBM) is incurable with current therapies. Biallelic
mismatch repair deficiency (bMMRD) is a highly penetrant childhood cancer syndrome …

[PDF][PDF] Comprehensive analysis of hypermutation in human cancer

…, N Light, D Fabrizio, M Zatzman, F Fuligni, R de Borja… - Cell, 2017 - cell.com
We present an extensive assessment of mutation burden through sequencing analysis of >81,000
tumors from pediatric and adult patients, including tumors with hypermutation caused …

Genomic hallmarks of localized, non-indolent prostate cancer

…, KC Chu, B Lo, F Nguyen, CH Li, RX Sun, R De Borja… - Nature, 2017 - nature.com
Prostate tumours are highly variable in their response to therapies, but clinically available
prognostic factors can explain only a fraction of this heterogeneity. Here we analysed 200 …

Combined hereditary and somatic mutations of replication error repair genes result in rapid onset of ultra-hypermutated cancers

A Shlien, BB Campbell, R De Borja, LB Alexandrov… - Nature …, 2015 - nature.com
DNA replication−associated mutations are repaired by two components: polymerase
proofreading and mismatch repair. The mutation consequences of disruption to both repair …

Spatial genomic heterogeneity within localized, multifocal prostate cancer

PC Boutros, M Fraser, NJ Harding, R De Borja… - Nature …, 2015 - nature.com
Herein we provide a detailed molecular analysis of the spatial heterogeneity of clinically
localized, multifocal prostate cancer to delineate new oncogenes or tumor suppressors. We …

Hotspot activating PRKD1 somatic mutations in polymorphous low-grade adenocarcinomas of the salivary glands

…, I Fonseca, A Assaad, C How, J Wang, R De Borja… - Nature …, 2014 - nature.com
Polymorphous low-grade adenocarcinoma (PLGA) is the second most frequent type of malignant
tumor of the minor salivary glands. We identified PRKD1 hotspot mutations encoding p.…

Rearrangement bursts generate canonical gene fusions in bone and soft tissue tumors

ND Anderson, R de Borja, MD Young, F Fuligni… - Science, 2018 - science.org
INTRODUCTION Gene fusions are often disease-defining events in cancer. The mutational
processes that give rise to fusions, their timing relative to initial diagnosis, and whether they …

[HTML][HTML] Robust global microRNA expression profiling using next-generation sequencing technologies

S Tam, R De Borja, MS Tsao, JD McPherson - Laboratory investigation, 2014 - nature.com
miRNAs are a class of regulatory molecules involved in a wide range of cellular functions,
including growth, development and apoptosis. Given their widespread roles in biological …

[HTML][HTML] BPG: Seamless, automated and interactive visualization of scientific data

…, KE Houlahan, J Wang, DR Garcia, R de Borja… - BMC …, 2019 - Springer
Background We introduce BPG, a framework for generating publication-quality, highly-customizable
plots in the R statistical environment. Results This open-source package includes …

[HTML][HTML] Germline TP53 mutations undergo copy number gain years prior to tumor diagnosis

…, A Novokmet, F Fuligni, J Tran, R de Borja… - Nature …, 2023 - nature.com
Li-Fraumeni syndrome (LFS) is a hereditary cancer predisposition syndrome associated
with germline TP53 pathogenic variants. Here, we perform whole-genome sequence (WGS) …