Oncogene-like addiction to aneuploidy in human cancers

Clonal hematopoiesis driven by chromosome 1q/MDM4 trisomy defines a canonical route toward leukemia in Fanconi anemia

(2023) Marie Sebert et al.   Cell Stem Cell

Prevalence, causes and impact of TP53-loss phenocopying events in human tumors

(2023) Bruno Fito-Lopez et al.   BMC BIOLOGY

Genomic characterization of metastatic patterns from prospective clinical sequencing of 25,000 patients

(2022) Bastien Nguyen et al.   CELL

Genome-wide identification and analysis of prognostic features in human cancers

(2022) Joan C. Smith et al.   Cell Reports

Extensive protein dosage compensation in aneuploid human cancers

(2022) Klaske M. Schukken et al.   GENOME RESEARCH

Somatic variant detection from multi-sampled genomic sequencing data of tumor specimens using the ith.Variant pipeline

(2022) Nicole Maeser et al.   STAR Protocols

Aneuploidy renders cancer cells vulnerable to mitotic checkpoint inhibition

(2021) Yael Cohen-Sharir et al.   NATURE

Whole-genome doubling confers unique genetic vulnerabilities on tumour cells

(2021) Ryan J. Quinton et al.   NATURE

Discovery and Mechanistic Characterization of a Select Modulator of AhR-regulated Transcription (SMAhRT) with Anti-cancer Effects

(2021) Edmond Francis O’Donnell et al.   APOPTOSIS

Chromosomal instability accelerates the evolution of resistance to anti-cancer therapies

(2021) Devon A. Lukow et al.   DEVELOPMENTAL CELL

Whole chromosome loss and genomic instability in mouse embryos after CRISPR-Cas9 genome editing

(2021) Stamatis Papathanasiou et al.   Nature Communications

Single-Chromosomal Gains Can Function as Metastasis Suppressors and Promoters in Colon Cancer

(2020) Anand Vasudevan et al.   DEVELOPMENTAL CELL

Discovering and validating cancer genetic dependencies: approaches and pitfalls

(2020) Ann Lin et al.   NATURE REVIEWS GENETICS

Mathematical model of colorectal cancer initiation

(2020) Chay Paterson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Allele-Specific Chromosome Removal after Cas9 Cleavage in Human Embryos

(2020) Michael V. Zuccaro et al.   CELL

CellMiner Cross-Database (CellMinerCDB) version 1.2: Exploration of patient-derived cancer cell line pharmacogenomics

(2020) Augustin Luna et al.   NUCLEIC ACIDS RESEARCH

Combining Rapid Data Independent Acquisition and CRISPR Gene Deletion for Studying Potential Protein Functions: A Case of HMGN1

(2019) Martin Mehnert et al.   PROTEOMICS

Multi-omic measurements of heterogeneity in HeLa cells across laboratories

(2019) Yansheng Liu et al.   NATURE BIOTECHNOLOGY

Activity of RX-3117, an oral antimetabolite nucleoside, in subjects with advanced urothelial cancer: Preliminary results of a phase IIa study.

(2019) Nicholas Salgia et al.   JOURNAL OF CLINICAL ONCOLOGY

MDM4 is targeted by 1q gain and drives disease in Burkitt lymphoma

(2019) Jennifer Hüllein et al.   CANCER RESEARCH

Analysis of 1508 plasma samples by capillary flow data-independent acquisition profiles proteomics of weight loss and maintenance

(2019) Roland Bruderer et al.   MOLECULAR & CELLULAR PROTEOMICS

Aneuploidy drives lethal progression in prostate cancer

(2019) Konrad H. Stopsack et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Uridine Cytidine Kinase 2 as a Potential Biomarker for Treatment with RX-3117 in Pancreatic Cancer

(2019) BTISSAME EL HASSOUNI et al.   ANTICANCER RESEARCH

Off-target toxicity is a common mechanism of action of cancer drugs undergoing clinical trials

(2019) Ann Lin et al.   Science Translational Medicine

Mechanisms of acquired resistance to first- and second-generation EGFR tyrosine kinase inhibitors

(2018) D Westover et al.   ANNALS OF ONCOLOGY

Genomic and Functional Approaches to Understanding Cancer Aneuploidy

(2018) Alison M. Taylor et al.   CANCER CELL

An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics

(2018) Jianfang Liu et al.   CELL

Profound Tissue Specificity in Proliferation Control Underlies Cancer Drivers and Aneuploidy Patterns

(2018) Laura Magill Sack et al.   CELL

Tumor copy number alteration burden is a pan-cancer prognostic factor associated with recurrence and death

(2018) Haley Hieronymus et al.   eLife

Optimized libraries for CRISPR-Cas9 genetic screens with multiple modalities

(2018) Kendall R. Sanson et al.   Nature Communications

Systematic identification of mutations and copy number alterations associated with cancer patient prognosis

(2018) Joan C Smith et al.   eLife

Optimization of Experimental Parameters in Data-Independent Mass Spectrometry Significantly Increases Depth and Reproducibility of Results

(2017) Roland Bruderer et al.   MOLECULAR & CELLULAR PROTEOMICS

Whole-genome landscapes of major melanoma subtypes

(2017) Nicholas K. Hayward et al.   NATURE

Nextflow enables reproducible computational workflows

(2017) Paolo Di Tommaso et al.   NATURE BIOTECHNOLOGY

Computational correction of copy number effect improves specificity of CRISPR–Cas9 essentiality screens in cancer cells

(2017) Robin M Meyers et al.   NATURE GENETICS

Census and evaluation of p53 target genes

(2017) M Fischer   ONCOGENE

Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry

(2017) Ben C. Collins et al.   Nature Communications

CRISPR/Cas9-induced transgene insertion and telomere-associated truncation of a single human chromosome for chromosome engineering in CHO and A9 cells

(2017) Narumi Uno et al.   Scientific Reports

KRAS: The Critical Driver and Therapeutic Target for Pancreatic Cancer

(2017) Andrew M. Waters et al.   Cold Spring Harbor Perspectives in Medicine

Integrative analysis of genomic alterations in triple-negative breast cancer in association with homologous recombination deficiency

(2017) Masahito Kawazu et al.   PLoS Genetics

The Roles of MDM2 and MDMX in Cancer

(2016) Orit Karni-Schmidt et al.   Annual Review of Pathology-Mechanisms of Disease

Low risk of solid tumors in persons with Down syndrome

(2016) Henrik Hasle et al.   GENETICS IN MEDICINE

SMASH, a fragmentation and sequencing method for genomic copy number analysis

(2016) Zihua Wang et al.   GENOME RESEARCH

The Cytidine Analog Fluorocyclopentenylcytosine (RX-3117) Is Activated by Uridine-Cytidine Kinase 2

(2016) Dzjemma Sarkisjan et al.   PLoS One

Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation

(2016) Max A Horlbeck et al.   eLife

Improved bi-allelic modification of a transcriptionally silent locus in patient-derived iPSC by Cas9 nickase

(2016) Reto Eggenschwiler et al.   Scientific Reports

Extending the Limits of Quantitative Proteome Profiling with Data-Independent Acquisition and Application to Acetaminophen-Treated Three-Dimensional Liver Microtissues

(2015) Roland Bruderer et al.   MOLECULAR & CELLULAR PROTEOMICS

DIA-Umpire: comprehensive computational framework for data-independent acquisition proteomics

(2015) Chih-Chiang Tsou et al.   NATURE METHODS

Discovery of oncogenes: The advent of molecular cancer research

(2015) Klaus Bister   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Clonal status of actionable driver events and the timing of mutational processes in cancer evolution

(2015) Nicholas McGranahan et al.   Science Translational Medicine

Clustering via Nonparametric Density Estimation: TheRPackagepdfCluster

(2015) Adelchi Azzalini et al.   Journal of Statistical Software

Methods and challenges in timing chromosomal abnormalities within cancer samples

(2013) Elizabeth Purdom et al.   BIOINFORMATICS

Cumulative Haploinsufficiency and Triplosensitivity Drive Aneuploidy Patterns and Shape the Cancer Genome

(2013) Teresa Davoli et al.   CELL

Pan-cancer patterns of somatic copy number alteration

(2013) Travis I Zack et al.   NATURE GENETICS

Cancer Genome Landscapes

(2013) B. Vogelstein et al.   SCIENCE

Trisomy Correction in Down Syndrome Induced Pluripotent Stem Cells

(2012) Li B. Li et al.   Cell Stem Cell

Causes and consequences of aneuploidy in cancer

(2012) David J. Gordon et al.   NATURE REVIEWS GENETICS

Oncogene addiction as a foundational rationale for targeted anti-cancer therapy: promises and perils

(2011) Davide Torti et al.   EMBO Molecular Medicine

The aneuploidy paradox: costs and benefits of an incorrect karyotype

(2011) Jason M. Sheltzer et al.   TRENDS IN GENETICS

The landscape of somatic copy-number alteration across human cancers

(2010) Rameen Beroukhim et al.   NATURE

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

BCL9 Promotes Tumor Progression by Conferring Enhanced Proliferative, Metastatic, and Angiogenic Properties to Cancer Cells

(2009) M. Mani et al.   CANCER RESEARCH

Concerning the Origin of Malignant Tumours by Theodor Boveri. Translated and annotated by Henry Harris

(2007) T. Boveri   JOURNAL OF CELL SCIENCE