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

MixHMM: Inferring Copy Number Variation and Allelic Imbalance Using SNP Arrays and Tumor Samples Mixed with Stromal Cells

(2010) Zongzhi Liu et al.   PLoS One

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

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

Genomic copy number determination in cancer cells from single nucleotide polymorphism microarrays based on quantitative genotyping corrected for aneuploidy

(2009) E. F. Attiyeh et al.   GENOME RESEARCH

Inferring tumor progression from genomic heterogeneity

(2009) N. Navin et al.   GENOME RESEARCH

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

Hidden Markov models for the assessment of chromosomal alterations using high-throughput SNP arrays

(2008) Robert B. Scharpf et al.   Annals of Applied Statistics

Normalization of Illumina Infinium whole-genome SNP data improves copy number estimates and allelic intensity ratios

(2008) Johan Staaf et al.   BMC BIOINFORMATICS

Experimental Design and Data Analysis for Array Comparative Genomic Hybridization

(2008) Peter J. Park   CANCER INVESTIGATION

Integrated detection and population-genetic analysis of SNPs and copy number variation

(2008) Steven A McCarroll et al.   NATURE GENETICS

Integrated genotype calling and association analysis of SNPs, common copy number polymorphisms and rare CNVs

(2008) Joshua M Korn et al.   NATURE GENETICS

Adjustment of genomic waves in signal intensities from whole-genome SNP genotyping platforms

(2008) Sharon J. Diskin et al.   NUCLEIC ACIDS RESEARCH

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