title: Accurate and robust prediction of genetic relationship from whole-genome sequences.
abstract: Computing the genetic relationship between two humans is important to studies in genetics, genomics, genealogy, and forensics. Relationship algorithms may be sensitive to noise, such as that arising from sequencing errors or imperfect reference genomes. We developed an algorithm for estimation of genetic relationship by averaged blocks (GRAB) that is designed for whole-genome sequencing (WGS) data. GRAB segments the genome into blocks, calculates the fraction of blocks sharing identity, and then uses a classification tree to infer 1st- to 5th- degree relationships and unrelated individuals. We evaluated GRAB on simulated and real sequenced families, and compared it with other software. GRAB achieves similar performance, and does not require knowledge of population background or phasing. GRAB can be used in workflows for identifying unreported relationships, validating reported relationships in family-based studies, and detection of sample-tracking errors or duplicate inclusion. The software is available at familygenomics.systemsbiology.net/grab.
authors.affiliation: Institute for Systems Biology, Seattle, Washington, United States of America.
authors.forename: Hong
authors.initials: H
authors.lastname: Li
authors.affiliation: Institute for Systems Biology, Seattle, Washington, United States of America.
authors.forename: Gustavo
authors.initials: G
authors.lastname: Glusman
authors.affiliation: Department of Epidemiology, University of Texas M. D. Anderson Cancer Center, Houston, Texas, United States of America.
authors.forename: Chad
authors.initials: C
authors.lastname: Huff
authors.affiliation: Institute for Systems Biology, Seattle, Washington, United States of America.
authors.forename: Juan
authors.initials: J
authors.lastname: Caballero
authors.affiliation: Institute for Systems Biology, Seattle, Washington, United States of America.
authors.forename: Jared C
authors.initials: JC
authors.lastname: Roach
mesh_terms: D000465:Algorithms; D015894:Genome, Human / Q000235:genetics*; D006801:Humans; D012984:Software