• PennCNV

  • Referenced in 16 articles [sw19390]
  • Markov model designed for high-resolution copy number variation detection in whole-genome SNP genotyping ... data. Comprehensive identification and cataloging of copy number variations (CNVs) is required to provide...
  • CNV-seq

  • Referenced in 11 articles [sw17970]
  • method to detect copy number variation using high-throughput sequencing. Background: DNA copy number variation ... recognized as an important source of genetic variation. Array comparative genomic hybridization (aCGH) is commonly ... describe a method to detect copy number variation using shotgun sequencing, CNV-seq. The method...
  • PICNIC

  • Referenced in 6 articles [sw20386]
  • algorithm to predict absolute allelic copy number variation with microarray cancer data. High-throughput oligonucleotide ... algorithms employed to extract genotypes and copy number variation function optimally for diploid genomes usually ... loss of heterozygosity, and absolute allelic copy number segmentation. Accurate prediction is demonstrated with...
  • CARAT

  • Referenced in 6 articles [sw35399]
  • Overall, CARAT automatically detects regions with copy number variations and assigns a significance score...
  • cghseg

  • Referenced in 4 articles [sw06783]
  • shifted to the joint assessment of copy number variations at the cohort level. Considering multiple...
  • ChromoScan

  • Referenced in 3 articles [sw35412]
  • with disease, gene expression profiles, DNA copy number variations, as well as other genome-based...
  • GenePattern

  • Referenced in 4 articles [sw16895]
  • microarray), sequence variation and copy number, proteomic, flow cytometry, and network analysis. These tools...
  • FLLat

  • Referenced in 2 articles [sw19127]
  • identify the regions of copy number variation (CNV) and to quantify the amount ... weighted sum of a fixed number of features. Regions of CNV are then identified through ... that FLLat and Significance Testing of Aberrant Copy number (an alternative, existing approach) identify similar...
  • modENCODE

  • Referenced in 2 articles [sw22998]
  • replication initiation and timing, and copy number variation. The raw and interpreted data from this...
  • ExomeCNV

  • Referenced in 1 article [sw35179]
  • Exome sequencing-based copy-number variation and loss of heterozygosity detection: ExomeCNV. Motivation: The ability ... detect copy-number variation (CNV) and loss of heterozygosity (LOH) from exome sequencing data extends...
  • SegCorr

  • Referenced in 1 article [sw21050]
  • role of mechanisms such as copy number variation (CNV) or epigenetic alterations as factors that ... corrected for correlations possibly caused by copy number variation. The correction permitted the detection...
  • Acgh.spline

  • Referenced in 1 article [sw18847]
  • ability to detect accurately both copy number variation (CNV) and copy number alterations...
  • DriverFinder

  • Referenced in 1 article [sw34273]
  • driver genes by integrating somatic mutations, copy number variations, gene-gene interaction network, tumor expression...
  • ParticleMDI

  • Referenced in 1 article [sw35255]
  • which there are gene expression, copy number variation, DNA methylation, protein expression and microRNA data...
  • FISHtrees

  • Referenced in 1 article [sw29659]
  • changes in ploidy and individual gene copy-number variations. We present FISHtrees 3.0, which implements...
  • SNPeffect

  • Referenced in 1 article [sw30038]
  • nucleotide variants (SNVs) are, together with copy number variation, the primary source of variation...
  • rmscca

  • Referenced in 1 article [sw23317]
  • relationships between gene expression and gene copy number variation. One of the biggest problems...
  • PhyloWGS

  • Referenced in 4 articles [sw26926]
  • variations. We introduce a principled phylogenic correction for VAFs in loci affected by copy number...
  • Delly

  • Referenced in 3 articles [sw33142]
  • essential requirement for characterizing naturally occurring variation and for understanding pathological somatic rearrangements in personal ... resolution. DELLY is suitable for detecting copy-number variable deletion and tandem duplication events...
  • Coq

  • Referenced in 1807 articles [sw00161]
  • Coq is a formal proof management system. It...