Genome-wide analysis of somatic copy number alterations and chromosomal breakages in osteosarcoma

The complex nature of fragile site plasticity and its importance in cancer

(2016) Dan Sarni et al.   CURRENT OPINION IN CELL BIOLOGY

Genomic determinants of somatic copy number alterations across human cancers

(2016) Yanping Zhang et al.   HUMAN MOLECULAR GENETICS

Chromothripsis: A New Mechanism for Rapid Karyotype Evolution

(2015) Mitchell L. Leibowitz et al.   Annual Review of Genetics

affy2sv: an R package to pre-process Affymetrix CytoScan HD and 750K arrays for SNP, CNV, inversion and mosaicism calling

(2015) Carles Hernandez-Ferrer et al.   BMC BIOINFORMATICS

Chromothripsis and Kataegis Induced by Telomere Crisis

(2015) John Maciejowski et al.   CELL

A cell-based model system links chromothripsis with hyperploidy

(2015) B. R. Mardin et al.   Molecular Systems Biology

Chromothripsis from DNA damage in micronuclei

(2015) Cheng-Zhong Zhang et al.   NATURE

Exome sequencing of osteosarcoma reveals mutation signatures reminiscent of BRCA deficiency

(2015) Michal Kovac et al.   Nature Communications

TP53 intron 1 hotspot rearrangements are specific to sporadic osteosarcoma and can cause Li-Fraumeni syndrome

(2015) Sebastian Ribi et al.   Oncotarget

Tumor Suppressor WWOX inhibits osteosarcoma metastasis by modulating RUNX2 function

(2015) Sara Del Mare et al.   Scientific Reports

Genomic Heterogeneity of Osteosarcoma - Shift from Single Candidates to Functional Modules

(2015) Kathrin Poos et al.   PLoS One

Chromothripsis-like patterns are recurring but heterogeneously distributed features in a survey of 22,347 cancer genome screens

(2014) Haoyang Cai et al.   BMC GENOMICS

The common fragile site FRA16D gene product WWOX: roles in tumor suppression and genomic stability

(2014) Rami I. Aqeilan et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

WWOX: A fragile tumor suppressor

(2014) Morgan S Schrock et al.   EXPERIMENTAL BIOLOGY AND MEDICINE

A high-resolution copy-number variation resource for clinical and population genetics

(2014) Mohammed Uddin et al.   GENETICS IN MEDICINE

COSMIC: exploring the world's knowledge of somatic mutations in human cancer

(2014) Simon A. Forbes et al.   NUCLEIC ACIDS RESEARCH

ArrayExpress update—simplifying data submissions

(2014) Nikolay Kolesnikov et al.   NUCLEIC ACIDS RESEARCH

Complementary genomic approaches highlight the PI3K/mTOR pathway as a common vulnerability in osteosarcoma

(2014) Jennifer A. Perry et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Recurrent Somatic Structural Variations Contribute to Tumorigenesis in Pediatric Osteosarcoma

(2014) Xiang Chen et al.   Cell Reports

Osteosarcoma treatment – Where do we stand? A state of the art review

(2013) Anja Luetke et al.   CANCER TREATMENT REVIEWS

A survey of intragenic breakpoints in glioblastoma identifies a distinct subset associated with poor survival

(2013) S. Zheng et al.   GENES & DEVELOPMENT

Increased genome instability in human DNA segments with self-chains: homology-induced structural variations via replicative mechanisms

(2013) Weichen Zhou et al.   HUMAN MOLECULAR GENETICS

Causes and consequences of replication stress

(2013) Michelle K. Zeman et al.   NATURE CELL BIOLOGY

Pan-cancer patterns of somatic copy number alteration

(2013) Travis I Zack et al.   NATURE GENETICS

Ploidy and Large-Scale Genomic Instability Consistently Identify Basal-like Breast Carcinomas with BRCA1/2 Inactivation

(2012) T. Popova et al.   CANCER RESEARCH

Chromothripsis and Human Disease: Piecing Together the Shattering Process

(2012) Christopher A. Maher et al.   CELL

Genome Sequencing of Pediatric Medulloblastoma Links Catastrophic DNA Rearrangements with TP53 Mutations

(2012) Tobias Rausch et al.   CELL

Identification of osteosarcoma driver genes by integrative analysis of copy number and gene expression data

(2012) Marieke L. Kuijjer et al.   GENES CHROMOSOMES & CANCER

A genome-wide analysis of common fragile sites: What features determine chromosomal instability in the human genome?

(2012) Arkarachai Fungtammasan et al.   GENOME RESEARCH

Comparative analysis of somatic copy-number alterations across different human cancer types reveals two distinct classes of breakpoint hotspots

(2012) Yudong Li et al.   HUMAN MOLECULAR GENETICS

DNA breaks and chromosome pulverization from errors in mitosis

(2012) Karen Crasta et al.   NATURE

Sequencing of neuroblastoma identifies chromothripsis and defects in neuritogenesis genes

(2012) Jan J. Molenaar et al.   NATURE

Non-B DB v2.0: a database of predicted non-B DNA-forming motifs and its associated tools

(2012) Regina Z. Cer et al.   NUCLEIC ACIDS RESEARCH

The UCSC Genome Browser database: extensions and updates 2013

(2012) Laurence R. Meyer et al.   NUCLEIC ACIDS RESEARCH

Chromothripsis identifies a rare and aggressive entity among newly diagnosed multiple myeloma patients

(2011) F. Magrangeas et al.   BLOOD

Cancer Genomes Evolve by Pulverizing Single Chromosomes

(2011) Matthew Meyerson et al.   CELL

Massive Genomic Rearrangement Acquired in a Single Catastrophic Event during Cancer Development

(2011) Philip J. Stephens et al.   CELL

To DNA or not to DNA? That Is the Question, When It Comes to Molecular Subtyping for the Clinic!

(2011) S. J. Smeets et al.   CLINICAL CANCER RESEARCH

When catastrophe strikes a cell

(2011) Jose M. C. Tubio et al.   NATURE

DNA secondary structures and epigenetic determinants of cancer genome evolution

(2011) Subhajyoti De et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

GPHMM: an integrated hidden Markov model for identification of copy number alteration and loss of heterozygosity in complex tumor samples using whole genome SNP arrays

(2011) Ao Li et al.   NUCLEIC ACIDS RESEARCH

GISTIC2.0 facilitates sensitive and confident localization of the targets of focal somatic copy-number alteration in human cancers

(2011) Craig H Mermel et al.   GENOME BIOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Frequent Attenuation of the WWOX Tumor Suppressor in Osteosarcoma Is Associated with Increased Tumorigenicity and Aberrant RUNX2 Expression

(2010) K. C. Kurek et al.   CANCER RESEARCH

Genomic Alterations and Allelic Imbalances Are Strong Prognostic Predictors in Osteosarcoma

(2010) J. Smida et al.   CLINICAL CANCER RESEARCH

The landscape of somatic copy-number alteration across human cancers

(2010) Rameen Beroukhim et al.   NATURE

Genomic instability — an evolving hallmark of cancer

(2010) Simona Negrini et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Allele-specific copy number analysis of tumors

(2010) P. Van Loo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A mobile threat to genome stability: The impact of non-LTR retrotransposons upon the human genome

(2010) Miriam K. Konkel et al.   SEMINARS IN CANCER BIOLOGY

Osteosarcoma incidence and survival rates from 1973 to 2004

(2009) Lisa Mirabello et al.   CANCER

Deletion of the WWOX gene and frequent loss of its protein expression in human osteosarcoma

(2009) Jilong Yang et al.   CANCER LETTERS

Non-B DNA structure-induced genetic instability and evolution

(2009) Junhua Zhao et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Second and Subsequent Recurrences of Osteosarcoma: Presentation, Treatment, and Outcomes of 249 Consecutive Cooperative Osteosarcoma Study Group Patients

(2008) Stefan S. Bielack et al.   JOURNAL OF CLINICAL ONCOLOGY