{"doi":"10.1007/s41870-025-02624-8","title":"Harnessing deep learning for SNP-based disease prediction in genomics","abstract":"This study investigates the use of deep learning models to predict disease status from single nucleotide polymorphism (SNP) data. Eight GEO datasets were processed using a consistent pipeline involving genotype encoding, data cleaning, and multiple feature selection strategies. A variety of DL architectures-including feedforward networks, autoencoders, CNNs, and RNNs-were trained and evaluated. The novelty of this work lies in the standardized preprocessing, feature selection, and model training pipeline applied across all datasets, allowing for a direct and fair comparison of model performance. Results consistently showed that feedforward networks and autoencoders performed best across most datasets. This work offers a practical approach to applying deep learning in genomics with potential for future extensions.","journal":"International Journal of Information Technology","year":2025,"id":539713,"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":3,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9576,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2025-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1298942,"name":"Harun Pirim","orcid":"0000-0001-5273-5955","position":1,"is_corresponding":false},{"id":1427630,"name":"M Mishkatur Rahman","orcid":null,"position":2,"is_corresponding":false},{"id":1299348,"name":"Colten Alme","orcid":null,"position":0,"is_corresponding":true}],"reference_count":21,"raw_metadata":null,"created_at":"2026-07-19T02:52:34.520788Z","pmid":"40822924","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":[]}