Downloaded from genome.cshlp.org on October 1, 2021 - Published by Cold Spring Harbor Laboratory Press Predicting human genes susceptible to genomic instability associated with Alu/Alu-mediated rearrangements Key words: genome instability, Alu, genomic rearrangement, MMBIR, bioinformatics, machine- learning Xiaofei Song1, Christine R. Beck1, Renqian Du1, Ian M. Campbell1, Zeynep Coban-Akdemir1, Shen Gu1, Amy M. Breman1,2, Pawel Stankiewicz1,2, Grzegorz Ira1, Chad A. Shaw1,2, James R. Lupski1,3,4,5* 1. Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA 2. Baylor Genetics, Houston, TX 77021, USA 3. Department of Pediatrics, Baylor College of Medicine, Houston, TX 77030, USA 4. Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA 5. Texas Children’s Hospital, Houston, TX 77030, USA *Corresponding author: James R. Lupski, M.D., Ph.D., D.Sc. (hon), FAAP, FACMG, FANA, FAAAS, FAAS Cullen Professor, Department of Molecular and Human Genetics and Professor of Pediatrics Member, Human Genome Sequencing Center (HGSC) Baylor College of Medicine One Baylor Plaza Houston, Texas 77030 E-mail:
[email protected] Phone: (713) 798-6530 Fax: (713) 798-5073 Downloaded from genome.cshlp.org on October 1, 2021 - Published by Cold Spring Harbor Laboratory Press Abstract Alu elements, the short interspersed element numbering >1 million copies per human genome, can mediate the formation of copy number variants (CNVs) between substrate pairs. These Alu/Alu-mediated rearrangements (AAMR) can result in pathogenic variants that cause diseases. To investigate the impact of AAMR on gene variation and human health, we first characterized Alus that are involved in mediating CNVs (CNV-Alus) and observed that these Alus tend to be evolutionarily younger.