Robust BRCA1-like classification of copy number profiles of samples repeated across different datasets and platforms

CopywriteR: DNA copy number detection from off-target sequence data

(2015) Thomas Kuilman et al.   GENOME BIOLOGY

Breast Cancers with a BRCA1-like DNA Copy Number Profile Recur Less Often Than Expected after High-Dose Alkylating Chemotherapy

(2014) P. C. Schouten et al.   CLINICAL CANCER RESEARCH

Characterization of the genomic features and expressed fusion genes in micropapillary carcinomas of the breast

(2014) Rachael Natrajan et al.   JOURNAL OF PATHOLOGY

Lack of Genomic Heterogeneity at High-Resolution aCGH between Primary Breast Cancers and Their Paired Lymph Node Metastases

(2014) Marieke A. Vollebergh et al.   PLoS One

Copynumber: Efficient algorithms for single- and multi-track copy number segmentation

(2013) Gro Nilsen et al.   BMC GENOMICS

Platform comparisons for identification of breast cancers with a BRCA-like copy number profile

(2013) Philip C. Schouten et al.   BREAST CANCER RESEARCH AND TREATMENT

Comprehensive molecular portraits of human breast tumours

(2012) Daniel C. Koboldt et al.   NATURE

The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups

(2012) Christina Curtis et al.   NATURE

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Summarizing and correcting the GC content bias in high-throughput sequencing

(2012) Yuval Benjamini et al.   NUCLEIC ACIDS RESEARCH

Joint segmentation, calling, and normalization of multiple CGH profiles

(2011) F. Picard et al.   BIOSTATISTICS

Genomic instability in breast and ovarian cancers: translation into clinical predictive biomarkers

(2011) Marieke A. Vollebergh et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Primary Colorectal Cancers and Their Subsequent Hepatic Metastases Are Genetically Different: Implications for Selection of Patients for Targeted Treatment

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

CGH arrays compared for DNA isolated from formalin-fixed, paraffin-embedded material

(2011) Oscar Krijgsman et al.   GENES CHROMOSOMES & CANCER

Multiplexed array-based and in-solution genomic enrichment for flexible and cost-effective targeted next-generation sequencing

(2011) Magdalena Harakalova et al.   Nature Protocols

An aCGH classifier derived from BRCA1-mutated breast cancer and benefit of high-dose platinum-based chemotherapy in HER2-negative breast cancer patients

(2010) M. A. Vollebergh et al.   ANNALS OF ONCOLOGY

Indicators of homologous recombination deficiency in breast cancer and association with response to neoadjuvant chemotherapy

(2010) E. H. Lips et al.   ANNALS OF ONCOLOGY

Prediction of BRCA2-association in hereditary breast carcinomas using array-CGH

(2010) Simon A. Joosse et al.   BREAST CANCER RESEARCH AND TREATMENT

Genomic signature of BRCA1 deficiency in sporadic basal-like breast tumors

(2010) Simon A. Joosse et al.   GENES CHROMOSOMES & CANCER

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

The pitfalls of platform comparison: DNA copy number array technologies assessed

(2009) Christina Curtis et al.   BMC GENOMICS

Tiling Path Genomic Profiling of Grade 3 Invasive Ductal Breast Cancers

(2009) R. Natrajan et al.   CLINICAL CANCER RESEARCH

Linking the Cellular Functions of BRCA Genes to Cancer Pathogenesis and Treatment

(2008) Ashok R. Venkitaraman   Annual Review of Pathology-Mechanisms of Disease

Estimation and assessment of raw copy numbers at the single locus level

(2008) H. Bengtsson et al.   BIOINFORMATICS

Comparison of the Agilent, ROMA/NimbleGen and Illumina platforms for classification of copy number alterations in human breast tumors

(2008) LO Baumbusch et al.   BMC GENOMICS

Prediction of BRCA1-association in hereditary non-BRCA1/2 breast carcinomas with array-CGH

(2008) Simon A. Joosse et al.   BREAST CANCER RESEARCH AND TREATMENT

Across array comparative genomic hybridization: A strategy to reduce reference channel hybridizations

(2008) Tineke E. Buffart et al.   GENES CHROMOSOMES & CANCER