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ZINBA integrates local covariates with DNA-seq data to identify broad and narrow regions of enrichment, even within amplified genomic regions.

ZINBA (Zero-Inflated Negative Binomial Algorithm) identifies genomic regions enriched in a variety of ChIP-seq and related next-generation sequencing experiments (DNA-seq), calling both broad and narrow modes of enrichment across a range of signal-to-noise ratios. ZINBA models and accounts for factors that co-vary with background or experimental signal, such as G/C content, and identifies enrichment in genomes with complex local copy number variations. ZINBA provides a single unified framework for analyzing DNA-seq experiments in challenging genomic contexts.

Pubmed ID: 21787385

Authors

  • Rashid NU
  • Giresi PG
  • Ibrahim JG
  • Sun W
  • Lieb JD

Journal

Genome biology

Publication Data

November 4, 2011

Associated Grants

  • Agency: NCI NIH HHS, Id: CA74015
  • Agency: NIGMS NIH HHS, Id: GM70335
  • Agency: NIEHS NIH HHS, Id: P30 ES010126
  • Agency: NIGMS NIH HHS, Id: R01 GM070335
  • Agency: NCI NIH HHS, Id: T32 CA106209
  • Agency: NHGRI NIH HHS, Id: U54 HG004563

Mesh Terms

  • Algorithms
  • Computer Simulation
  • DNA Copy Number Variations
  • Genomics
  • Models, Genetic
  • Models, Statistical
  • Sequence Analysis, DNA
  • Software