{"doi":"10.21203/rs.3.rs-33088/v2","title":"Genome-wide Variant-based Study of Genetic Effects with the Largest Neuroanatomic Coverage","abstract":"Abstract Background: Brain image genetics provides enormous opportunities for examining the effects of geneticvariations on the brain. Many studies have shown that the structure, function, and abnormality (e.g., thoserelated to Alzheimer's disease) of the brain are heritable. However, which genetic variations contribute to thesephenotypic changes is not completely clear. Advances in neuroimaging and genetics have led us to obtaindetailed brain anatomy and genome-wide information. These data offer us new opportunities to identify geneticvariations such as single nucleotide polymorphisms (SNPs) that affect brain structure. In this paper, we performa genome-wide variant-based study, and aim to identify top SNPs or SNP sets which have genetic effects withthe largest neuroanotomic coverage at both voxel and region-of-interest (ROI) levels. Based on the voxelwisegenome-wide association study (GWAS) results, we used the exhaustive search to nd the top SNPs or SNPsets that have the largest voxel-based or ROI-based neuroanatomic coverage. For SNP sets with >2 SNPs, weproposed an efficient genetic algorithm to identify top SNP sets that can cover all ROIs or a specific ROI.Results: We identified an ensemble of top SNPs, SNP-pairs and SNP-sets, whose effects have the largestneuroanatomic coverage. Experimental results on real imaging genetics data show that the proposed geneticalgorithm is superior to the exhaustive search in terms of computational time for identifying top SNP-sets.Conclusions: We proposed and applied an informatics strategy to identify top SNPs, SNP-pairs and SNP-setsthat have genetic effects with the largest neuroanatomic coverage. The proposed genetic algorithm others anefficient solution to accomplish the task, especially for identifying top SNP-sets.","journal":"Research Square","year":2020,"id":133874,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":0,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9354,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2020-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":589735,"name":"Wenjie Liu","orcid":"0000-0003-3220-5820","position":1,"is_corresponding":false},{"id":589736,"name":"Huang Li","orcid":"0000-0003-4154-818X","position":2,"is_corresponding":false},{"id":241136,"name":"Feng Chen","orcid":"0000-0003-3508-8834","position":3,"is_corresponding":false},{"id":424991,"name":"Haoran Luo","orcid":"0000-0003-0070-4190","position":4,"is_corresponding":false},{"id":589896,"name":"Peihua Bao","orcid":null,"position":5,"is_corresponding":false},{"id":589737,"name":"Yanzhao Li","orcid":"0000-0002-3170-0291","position":6,"is_corresponding":false},{"id":589738,"name":"Hailong Jiang","orcid":"0000-0002-2151-505X","position":7,"is_corresponding":false},{"id":589739,"name":"Yue Gao","orcid":"0000-0002-4971-590X","position":8,"is_corresponding":false},{"id":381450,"name":"Hong Liang","orcid":"0000-0002-2590-7210","position":9,"is_corresponding":false},{"id":385159,"name":"Shiaofen Fang","orcid":"0000-0001-8277-5202","position":10,"is_corresponding":false},{"id":272532,"name":"Jin Li","orcid":"0000-0001-9201-2321","position":0,"is_corresponding":true}],"reference_count":40,"raw_metadata":null,"created_at":"2026-07-18T23:16:20.998822Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}