Extensive protein dosage compensation in aneuploid human cancers

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

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

Regulation of protein complex partners as a compensatory mechanism in aneuploid tumors

(2022) Gökçe Senger et al.   eLife

Aneuploidy renders cancer cells vulnerable to mitotic checkpoint inhibition

(2021) Yael Cohen-Sharir et al.   NATURE

Consequences of aneuploidy in human fibroblasts with trisomy 21

(2021) Sunyoung Hwang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gene copy-number changes and chromosomal instability induced by aneuploidy confer resistance to chemotherapy

(2021) Marica Rosaria Ippolito et al.   DEVELOPMENTAL CELL

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

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

Chromosomal copy number heterogeneity predicts survival rates across cancers

(2021) Erik van Dijk et al.   Nature Communications

Systems approaches identify the consequences of monosomy in somatic human cells

(2021) Narendra Kumar Chunduri et al.   Nature Communications

Quantitative Proteomics of the Cancer Cell Line Encyclopedia

(2020) David P. Nusinow et al.   CELL

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

(2020) Anand Vasudevan et al.   DEVELOPMENTAL CELL

Acquisition of chromosome instability is a mechanism to evade oncogene addiction

(2020) Lorena Salgueiro et al.   EMBO Molecular Medicine

Chromosome arm aneuploidies shape tumour evolution and drug response

(2020) Ankit Shukla et al.   Nature Communications

Keeping the Proportions of Protein Complex Components in Check

(2020) James Christopher Taggart et al.   Cell Systems

mRNAs, proteins and the emerging principles of gene expression control

(2020) Christopher Buccitelli et al.   NATURE REVIEWS GENETICS

Down Syndrome

(2020) Marilyn J. Bull   NEW ENGLAND JOURNAL OF MEDICINE

P53 induces senescence in the unstable progeny of aneuploid cells

(2020) Maybelline Giam et al.   CELL CYCLE

MobiDB: intrinsically disordered proteins in 2021

(2020) Damiano Piovesan et al.   NUCLEIC ACIDS RESEARCH

Aneuploidy increases resistance to chemotherapeutics by antagonizing cell division

(2020) John Michael Replogle et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Central dogma rates and the trade-off between precision and economy in gene expression

(2019) Jean Hausser et al.   Nature Communications

Next-generation characterization of the Cancer Cell Line Encyclopedia

(2019) Mahmoud Ghandi et al.   NATURE

g:Profiler: a web server for functional enrichment analysis and conversions of gene lists (2019 update)

(2019) Uku Raudvere et al.   NUCLEIC ACIDS RESEARCH

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

Protein aggregation mediates stoichiometry of protein complexes in aneuploid cells

(2019) Christopher M. Brennan et al.   GENES & DEVELOPMENT

Multi-omics characterization of interaction-mediated control of human protein abundance levels

(2019) Abel Sousa et al.   MOLECULAR & CELLULAR PROTEOMICS

Trisomy 13 and 18—Prevalence and mortality—A multi‐registry population based analysis

(2019) Nitin Goel et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART A

Context is everything: aneuploidy in cancer

(2019) Uri Ben-David et al.   NATURE REVIEWS GENETICS

Suppressing Aneuploidy-Associated Phenotypes Improves the Fitness of Trisomy 21 Cells

(2019) Sunyoung Hwang et al.   Cell Reports

Genomic and Functional Approaches to Understanding Cancer Aneuploidy

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

Comprehensive Characterization of Cancer Driver Genes and Mutations

(2018) Matthew H. Bailey et al.   CELL

Quantitative proteomic and phosphoproteomic comparison of human colon cancer DLD-1 cells differing in ploidy and chromosome stability

(2018) Cristina Viganó et al.   MOLECULAR BIOLOGY OF THE CELL

Chromosomal instability drives metastasis through a cytosolic DNA response

(2018) Samuel F. Bakhoum et al.   NATURE

Systematic analysis of protein turnover in primary cells

(2018) Toby Mathieson et al.   Nature Communications

FoxM1 repression during human aging leads to mitotic decline and aneuploidy-driven full senescence

(2018) Joana Catarina Macedo et al.   Nature Communications

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

(2018) Haley Hieronymus et al.   eLife

Chromosomal instability-induced senescence potentiates cell non-autonomous tumourigenic effects

(2018) Qianqian He et al.   Oncogenesis

CORUM: the comprehensive resource of mammalian protein complexes—2019

(2018) Madalina Giurgiu et al.   NUCLEIC ACIDS RESEARCH

The Impact of Next-Generation Sequencing on Cancer Genomics: From Discovery to Clinic

(2018) Elaine R. Mardis   Cold Spring Harbor Perspectives in Medicine

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

(2018) Joan C Smith et al.   eLife

Tumor aneuploidy correlates with markers of immune evasion and with reduced response to immunotherapy

(2017) Teresa Davoli et al.   SCIENCE

Systematic proteome and proteostasis profiling in human Trisomy 21 fibroblast cells

(2017) Yansheng Liu et al.   Nature Communications

Widespread Post-transcriptional Attenuation of Genomic Copy-Number Variation in Cancer

(2017) Emanuel Gonçalves et al.   Cell Systems

Integrated Proteogenomic Characterization of Human High-Grade Serous Ovarian Cancer

(2016) Hui Zhang et al.   CELL

Kinetic Analysis of Protein Stability Reveals Age-Dependent Degradation

(2016) Erik McShane et al.   CELL

Proteogenomics connects somatic mutations to signalling in breast cancer

(2016) Philipp Mertins et al.   NATURE

HIPPIE v2.0: enhancing meaningfulness and reliability of protein–protein interaction networks

(2016) Gregorio Alanis-Lobato et al.   NUCLEIC ACIDS RESEARCH

Chromosome instability drives phenotypic switching to metastasis

(2016) ChongFeng Gao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The presence of extra chromosomes leads to genomic instability

(2016) Verena Passerini et al.   Nature Communications

DNA aneuploidy and breast cancer: a meta-analysis of 141,163 cases

(2016) Jing Xu et al.   Oncotarget

The Role of Aneuploidy in Cancer Evolution

(2016) Laurent Sansregret et al.   Cold Spring Harbor Perspectives in Medicine

Causes and consequences of protein folding stress in aneuploid cells

(2015) Neysan Donnelly et al.   CELL CYCLE

The CPTAC Data Portal: A Resource for Cancer Proteomics Research

(2015) Nathan J. Edwards et al.   JOURNAL OF PROTEOME RESEARCH

The BioMart community portal: an innovative alternative to large, centralized data repositories

(2015) Damian Smedley et al.   NUCLEIC ACIDS RESEARCH

Aneuploidy and chromosomal instability in cancer: a jackpot to chaos

(2015) Maybelline Giam et al.   Cell Division

Unique features of the transcriptional response to model aneuploidy in human cells

(2014) Milena Dürrbaum et al.   BMC GENOMICS

HSF1 deficiency and impaired HSP90-dependent protein folding are hallmarks of aneuploid human cells

(2014) N. Donnelly et al.   EMBO JOURNAL

Domains of genome-wide gene expression dysregulation in Down’s syndrome

(2014) Audrey Letourneau et al.   NATURE

Proteogenomic characterization of human colon and rectal cancer

(2014) Bing Zhang et al.   NATURE

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations

(2014) Peter V. Hornbeck et al.   NUCLEIC ACIDS RESEARCH

Quantitative proteomic analysis reveals posttranslational responses to aneuploidy in yeast

(2014) Noah Dephoure et al.   eLife

A Transcriptional and Metabolic Signature of Primary Aneuploidy Is Present in Chromosomally Unstable Cancer Cells and Informs Clinical Prognosis

(2013) J. M. Sheltzer   CANCER RESEARCH

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

(2013) Teresa Davoli et al.   CELL

Measuring and Managing Ratio Compression for Accurate iTRAQ/TMT Quantification

(2013) Mikhail M. Savitski et al.   JOURNAL OF PROTEOME RESEARCH

Human mesenchymal stem cell-replicative senescence and oxidative stress are closely linked to aneuploidy

(2013) J C Estrada et al.   Cell Death & Disease

Widespread Aggregation and Neurodegenerative Diseases Are Associated with Supersaturated Proteins

(2013) Prajwal Ciryam et al.   Cell Reports

On the effect of protein conformation diversity in discriminating among neutral and disease related single amino acid substitutions

(2012) Ezequiel Juritz et al.   BMC GENOMICS

Aneuploidy causes proteotoxic stress in yeast

(2012) A. B. Oromendia et al.   GENES & DEVELOPMENT

Cancer cells preferentially lose small chromosomes

(2012) Pascal H.G. Duijf et al.   INTERNATIONAL JOURNAL OF CANCER

Global analysis of genome, transcriptome and proteome reveals the response to aneuploidy in human cells

(2012) Silvia Stingele et al.   Molecular Systems Biology

The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity

(2012) Jordi Barretina et al.   NATURE

Transcriptional consequences of aneuploidy

(2012) J. M. Sheltzer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

pROC: an open-source package for R and S+ to analyze and compare ROC curves

(2011) Xavier Robin et al.   BMC BIOINFORMATICS

Identification of Aneuploidy-Selective Antiproliferation Compounds

(2011) Yun-Chi Tang et al.   CELL

MS3 eliminates ratio distortion in isobaric multiplexed quantitative proteomics

(2011) Lily Ting et al.   NATURE METHODS

Aneuploidy Drives Genomic Instability in Yeast

(2011) J. M. Sheltzer et al.   SCIENCE

Identification of Aneuploidy-Tolerating Mutations

(2010) Eduardo M. Torres et al.   CELL

Proteomic Changes Resulting from Gene Copy Number Variations in Cancer Cells

(2010) Tamar Geiger et al.   PLoS Genetics

Acquisition of Aneuploidy Provides Increased Fitness during the Evolution of Antifungal Drug Resistance

(2009) Anna M. Selmecki et al.   PLoS Genetics

Aneuploidy Affects Proliferation and Spontaneous Immortalization in Mammalian Cells

(2008) B. R. Williams et al.   SCIENCE