Multi-omics analysis reveals distinct non-reversion mechanisms of PARPi resistance in BRCA1- versus BRCA2-deficient mammary tumors

Truncated FGFR2 is a clinically actionable oncogene in multiple cancers

(2022) Daniel Zingg et al.   NATURE

Genetic interactions among Brca1, Brca2, Palb2, and Trp53 in mammary tumor development

(2021) Yanying Huo et al.   npj Breast Cancer

ADD3 Deletion in Glioblastoma Predicts Disease Status and Survival

(2021) Karrie Mei-Yee Kiang et al.   Frontiers in Oncology

Reversion and non-reversion mechanisms of resistance to PARP inhibitor or platinum chemotherapy in BRCA1/2-mutant metastatic breast cancer

(2020) Adrienne G. Waks et al.   ANNALS OF ONCOLOGY

PALB2 chromatin recruitment restores homologous recombination in BRCA1-deficient cells depleted of 53BP1

(2020) Rimma Belotserkovskaya et al.   Nature Communications

Tumors defective in homologous recombination rely on oxidative metabolism: relevance to treatments with PARP inhibitors

(2020) Álvaro Lahiguera et al.   EMBO Molecular Medicine

The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets

(2020) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

NADP+ is an endogenous PARP inhibitor in DNA damage response and tumor suppression

(2019) Chunjing Bian et al.   Nature Communications

PARP Inhibitor Efficacy Depends on CD8+ T-cell Recruitment via Intratumoral STING Pathway Activation in BRCA-Deficient Models of Triple-Negative Breast Cancer

(2019) Constantia Pantelidou et al.   Cancer Discovery

DNA double-strand break repair-pathway choice in somatic mammalian cells

(2019) Ralph Scully et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Neoadjuvant Talazoparib for Patients With Operable Breast Cancer With a Germline BRCA Pathogenic Variant

(2019) Jennifer K. Litton et al.   JOURNAL OF CLINICAL ONCOLOGY

RAD51 foci as a functional biomarker of homologous recombination repair and PARP inhibitor resistance in germline BRCA-mutated breast cancer

(2018) C Cruz et al.   ANNALS OF ONCOLOGY

Selective Loss of PARG Restores PARylation and Counteracts PARP Inhibitor-Mediated Synthetic Lethality

(2018) Ewa Gogola et al.   CANCER CELL

DNA Repair Network Analysis Reveals Shieldin as a Key Regulator of NHEJ and PARP Inhibitor Sensitivity

(2018) Rajat Gupta et al.   CELL

FAM35A associates with REV7 and modulates DNA damage responses of normal and BRCA1‐defective cells

(2018) Junya Tomida et al.   EMBO JOURNAL

SLFN11 Blocks Stressed Replication Forks Independently of ATR

(2018) Junko Murai et al.   MOLECULAR CELL

Shieldin complex promotes DNA end-joining and counters homologous recombination in BRCA1-null cells

(2018) Harveer Dev et al.   NATURE CELL BIOLOGY

Genome-wide and high-density CRISPR-Cas9 screens identify point mutations in PARP1 causing PARP inhibitor resistance

(2018) Stephen J. Pettitt et al.   Nature Communications

The CST Complex Mediates End Protection at Double-Strand Breaks and Promotes PARP Inhibitor Sensitivity in BRCA1-Deficient Cells

(2018) Marco Barazas et al.   Cell Reports

Transcriptomics and Transposon Mutagenesis Identify Multiple Mechanisms of Resistance to the FGFR Inhibitor AZD4547

(2018) Sjors M. Kas et al.   CANCER RESEARCH

SHLD2/FAM35A co‐operates with REV7 to coordinate DNA double‐strand break repair pathway choice

(2018) Steven Findlay et al.   EMBO JOURNAL

53BP1 cooperation with the REV7–shieldin complex underpins DNA structure-specific NHEJ

(2018) Hind Ghezraoui et al.   NATURE

The shieldin complex mediates 53BP1-dependent DNA repair

(2018) Sylvie M. Noordermeer et al.   NATURE

An OB-fold complex controls the repair pathways for DNA double-strand breaks

(2018) Shengxian Gao et al.   Nature Communications

BRCA1 Mutation-Specific Responses to 53BP1 Loss-Induced Homologous Recombination and PARP Inhibitor Resistance

(2018) Joseph Nacson et al.   Cell Reports

PARPi Triggers the STING-Dependent Immune Response and Enhances the Therapeutic Efficacy of Immune Checkpoint Blockade Independent of BRCAness

(2018) Jianfeng Shen et al.   CANCER RESEARCH

PARP Inhibition Elicits STING-Dependent Antitumor Immunity in Brca1-Deficient Ovarian Cancer

(2018) Liya Ding et al.   Cell Reports

EZH2 promotes degradation of stalled replication forks by recruiting MUS81 through histone H3 trimethylation

(2017) Beatrice Rondinelli et al.   NATURE CELL BIOLOGY

BRCA-deficient mouse mammary tumor organoids to study cancer-drug resistance

(2017) Alexandra A Duarte et al.   NATURE METHODS

The multifaceted roles of PARP1 in DNA repair and chromatin remodelling

(2017) Arnab Ray Chaudhuri et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Reversion Mutations with Clinical Use of PARP Inhibitors: Many Genes, Many Versions

(2017) Susan M. Domchek   Cancer Discovery

Novel insights into RAD51 activity and regulation during homologous recombination and DNA replication

(2016) Stephen K. Godin et al.   Biochemistry and Cell Biology

The PARP Inhibitor AZD2461 Provides Insights into the Role of PARP3 Inhibition for Both Synthetic Lethality and Tolerability with Chemotherapy in Preclinical Models

(2016) L. Oplustil O'Connor et al.   CANCER RESEARCH

Replication fork stability confers chemoresistance in BRCA-deficient cells

(2016) Arnab Ray Chaudhuri et al.   NATURE

RUBIC identifies driver genes by detecting recurrent DNA copy number breaks

(2016) Ewald van Dyk et al.   Nature Communications

Resistance to PARP inhibitors by SLFN11 inactivation can be overcome by ATR inhibition

(2016) Junko Murai et al.   Oncotarget

MAD2L2 controls DNA repair at telomeres and DNA breaks by inhibiting 5′ end resection

(2015) Vera Boersma et al.   NATURE

REV7 counteracts DNA double-strand break resection and affects PARP inhibition

(2015) Guotai Xu et al.   NATURE

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Integrated interactions database: tissue-specific view of the human and model organism interactomes

(2015) Max Kotlyar et al.   NUCLEIC ACIDS RESEARCH

The Molecular Signatures Database Hallmark Gene Set Collection

(2015) Arthur Liberzon et al.   Cell Systems

Cell cycle-dependent inhibition of 53BP1 signaling by BRCA1

(2015) Lin Feng et al.   Cell Discovery

DNA copy number analysis of fresh and formalin-fixed specimens by shallow whole-genome sequencing with identification and exclusion of problematic regions in the genome assembly

(2014) Ilari Scheinin et al.   GENOME RESEARCH

Accurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ

(2014) Jürgen Cox et al.   MOLECULAR & CELLULAR PROTEOMICS

Easy quantitative assessment of genome editing by sequence trace decomposition

(2014) Eva K. Brinkman et al.   NUCLEIC ACIDS RESEARCH

ColonyArea: An ImageJ Plugin to Automatically Quantify Colony Formation in Clonogenic Assays

(2014) Camilo Guzmán et al.   PLoS One

voom: precision weights unlock linear model analysis tools for RNA-seq read counts

(2014) Charity W Law et al.   GENOME BIOLOGY

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Efficacy of Chemotherapy in BRCA1/2 Mutation Carrier Ovarian Cancer in the Setting of PARP Inhibitor Resistance: A Multi-Institutional Study

(2013) J. E. Ang et al.   CLINICAL CANCER RESEARCH

RIF1 Is Essential for 53BP1-Dependent Nonhomologous End Joining and Suppression of DNA Double-Strand Break Resection

(2013) J. Ross Chapman et al.   MOLECULAR CELL

A Cell Cycle-Dependent Regulatory Circuit Composed of 53BP1-RIF1 and BRCA1-CtIP Controls DNA Repair Pathway Choice

(2013) Cristina Escribano-Díaz et al.   MOLECULAR CELL

Identifying subgroup markers in heterogeneous populations

(2013) Jorma J. de Ronde et al.   NUCLEIC ACIDS RESEARCH

A Genetic Screen Using the PiggyBac Transposon in Haploid Cells Identifies Parp1 as a Mediator of Olaparib Toxicity

(2013) Stephen J. Pettitt et al.   PLoS One

53BP1 Regulates DSB Repair Using Rif1 to Control 5' End Resection

(2013) M. Zimmermann et al.   SCIENCE

Rif1 Prevents Resection of DNA Breaks and Promotes Immunoglobulin Class Switching

(2013) M. Di Virgilio et al.   SCIENCE

DriverNet: uncovering the impact of somatic driver mutations on transcriptional networks in cancer

(2013) Ali Bashashati et al.   GENOME BIOLOGY

DELLY: structural variant discovery by integrated paired-end and split-read analysis

(2012) T. Rausch et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Trapping of PARP1 and PARP2 by Clinical PARP Inhibitors

(2012) J. Murai et al.   CANCER RESEARCH

Synthetic lethality of PARP and NAMPT inhibition in triple-negative breast cancer cells

(2012) Ilirjana Bajrami et al.   EMBO Molecular Medicine

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Secondary mutations inBRCA2associated with clinical resistance to a PARP inhibitor

(2012) Louise J Barber et al.   JOURNAL OF PATHOLOGY

Loss of 53BP1 Causes PARP Inhibitor Resistance in Brca1 -Mutated Mouse Mammary Tumors

(2012) Janneke E. Jaspers et al.   Cancer Discovery

Secondary Somatic Mutations Restoring BRCA1/2 Predict Chemotherapy Resistance in Hereditary Ovarian Carcinomas

(2011) Barbara Norquist et al.   JOURNAL OF CLINICAL ONCOLOGY

Human Protein Reference Database and Human Proteinpedia as resources for phosphoproteome analysis

(2011) Renu Goel et al.   Molecular BioSystems

Mouse genomic variation and its effect on phenotypes and gene regulation

(2011) Thomas M. Keane et al.   NATURE

53BP1 Inhibits Homologous Recombination in Brca1-Deficient Cells by Blocking Resection of DNA Breaks

(2010) Samuel F. Bunting et al.   CELL

53BP1 loss rescues BRCA1 deficiency and is associated with triple-negative and BRCA-mutated breast cancers

(2010) Peter Bouwman et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Enrichment Map: A Network-Based Method for Gene-Set Enrichment Visualization and Interpretation

(2010) Daniele Merico et al.   PLoS One

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

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

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

Selective Inhibition of BRCA2-Deficient Mammary Tumor Cell Growth by AZD2281 and Cisplatin

(2008) B. Evers et al.   CLINICAL CANCER RESEARCH