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Circulating tumor DNA dynamics and clinical outcome in metastatic colorectal cancer patients undergoing front-line chemotherapy
We tested whether circulating tumor DNA (ctDNA) changes may be used to assess early response and clinical outcomes in patients with …
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Computational pathology applied to clinical colorectal cancer cohorts identifies immune and endothelial cell spatial patterns predictive of outcome
Colorectal cancer (CRC) is a histologically heterogeneous disease with variable clinical outcome. The role the tumour microenvironment …
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Epigenetic Heritability of Cell Plasticity Drives Cancer Drug Resistance through a One-to-Many Genotype-to-Phenotype Paradigm
Cancer drug resistance is multi-factorial, driven by heritable (epi)genetic changes but also phenotypic plasticity. Here, we dissected …
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Genomic landscape of diffuse glioma revealed by whole genome sequencing
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Heterogeneity and evolution of DNA mutation rates in microsatellite stable colorectal cancer
Historically, DNA sequence mutability has been considered relatively uniform and low in tumors with chromosomal instability (CIN), …
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MIDAA: deep archetypal analysis for interpretable multi-omic data integration based on biological principles
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MIDAA: deep archetypal analysis for interpretable multi-omic data integration based on biological principles
MYC ecDNA promotes intratumour heterogeneity and plasticity in PDAC
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Quantitative measurement of phenotype dynamics during cancer drug resistance evolution using genetic barcoding
Cancer treatment frequently fails due to the evolution of drug-resistant cell phenotypes driven by genetic or non-genetic changes. The …
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Single cell multi-omic whole genome sequencing and chromatin accessibility profiling reveals genome-epigenome coevolution in colorectal cancer
Epigenetic alterations co-evolve with genetic mutations to drive carcinogenesis and treatment response. Resolving genome-epigenome …
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Stratified Medicine Pediatrics: Cell-Free DNA and Serial Tumor Sequencing Identifies Subtype-Specific Cancer Evolution and Epigenetic States
We profiled a large heterogeneous cohort of matched diagnostic relapse tumor tissue and paired plasma-derived cell-free DNA (cfDNA) …
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