Parent-specific copy number in paired tumor–normal studies using circular binary segmentation

Estimation of Parent Specific DNA Copy Number in Tumors using High-Density Genotyping Arrays

(2011) Hao Chen et al.   PLoS Computational Biology

Copy neutral loss of heterozygosity: a novel chromosomal lesion in myeloid malignancies

(2010) C. O'Keefe et al.   BLOOD

TumorBoost: Normalization of allele-specific tumor copy numbers from a single pair of tumor-normal genotyping microarrays

(2010) Henrik Bengtsson et al.   BMC BIOINFORMATICS

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 single-sample method for normalizing and combining full-resolution copy numbers from multiple platforms, labs and analysis methods

(2009) H. Bengtsson et al.   BIOINFORMATICS

A single-array preprocessing method for estimating full-resolution raw copy numbers from all Affymetrix genotyping arrays including GenomeWideSNP 5 & 6

(2009) Henrik Bengtsson et al.   BIOINFORMATICS

PICNIC: an algorithm to predict absolute allelic copy number variation with microarray cancer data

(2009) C. D. Greenman et al.   BIOSTATISTICS

Integrated study of copy number states and genotype calls using high-density SNP arrays

(2009) Wei Sun et al.   NUCLEIC ACIDS RESEARCH

Genome Alteration Print (GAP): a tool to visualize and mine complex cancer genomic profiles obtained by SNP arrays

(2009) Tatiana Popova et al.   GENOME BIOLOGY

SNP Arrays in Heterogeneous Tissue: Highly Accurate Collection of Both Germline and Somatic Genetic Information from Unpaired Single Tumor Samples

(2008) Guillaume Assié et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Major copy proportion analysis of tumor samples using SNP arrays

(2008) Cheng Li et al.   BMC BIOINFORMATICS

Bayesian Hidden Markov Modeling of Array CGH Data

(2008) Subharup Guha et al.   JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION

Comprehensive genomic characterization defines human glioblastoma genes and core pathways

(2008) Roger McLendon et al.   NATURE

Prevalence of copy-number neutral LOH in glioblastomas revealed by genomewide analysis of laser-microdissected tissues

(2008) Daisuke Kuga et al.   NEURO-ONCOLOGY

Segmentation-based detection of allelic imbalance and loss-of-heterozygosity in cancer cells using whole genome SNP arrays

(2008) Johan Staaf et al.   GENOME BIOLOGY