{"doi":"10.1093/bioinformatics/btaf115","title":"AlphaPulldown2—a general pipeline for high-throughput structural modeling","abstract":"<jats:title>Abstract</jats:title>\n                  <jats:sec>\n                    <jats:title>Summary</jats:title>\n                    <jats:p>AlphaPulldown2 streamlines protein structural modeling by automating workflows, improving code adaptability, and optimizing data management for large-scale applications. It introduces an automated Snakemake pipeline, compressed data storage, support for additional modeling backends like UniFold and AlphaLink2, and a range of other improvements. These upgrades make AlphaPulldown2 a versatile platform for predicting both binary interactions and complex multi-unit assemblies.</jats:p>\n                  </jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation</jats:title>\n                    <jats:p>AlphaPulldown2 is freely available at https://github.com/KosinskiLab/AlphaPulldown.</jats:p>\n                  </jats:sec>","journal":"Bioinformatics","year":2025,"id":636480,"datarank":0.44166584687496613,"base_score":2.9444389791664403,"endowment":2.9444389791664403,"self_citation_contribution":0.44166584687496613,"citation_network_contribution":0.0,"self_endowment_contribution":0.44166584687496613,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":18,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":1,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1651964,"name":"Valentin J Maurer","orcid":null,"position":1,"is_corresponding":false},{"id":1651966,"name":"Dingquan Yu","orcid":null,"position":2,"is_corresponding":false},{"id":560417,"name":"Grzegorz Chojnowski","orcid":"0000-0002-3796-8352","position":3,"is_corresponding":false},{"id":991636,"name":"Stefan Bienert","orcid":"0000-0002-9673-9103","position":4,"is_corresponding":false},{"id":643966,"name":"Gerardo Tauriello","orcid":"0000-0002-5921-7007","position":5,"is_corresponding":false},{"id":919674,"name":"Konstantin Gilep","orcid":"0009-0009-2319-2213","position":6,"is_corresponding":false},{"id":80000,"name":"Torsten Schwede","orcid":"0000-0003-2715-335X","position":7,"is_corresponding":false},{"id":1651971,"name":"Jan Kosinski","orcid":"0000-0002-3641-0322","position":8,"is_corresponding":false},{"id":958426,"name":"Dmitry Molodenskiy","orcid":"0000-0002-5954-4294","position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"AlphaPulldown2—a general pipeline for high-throughput structural modeling","abstract":"<jats:title>Abstract</jats:title>\n                  <jats:sec>\n                    <jats:title>Summary</jats:title>\n                    <jats:p>AlphaPulldown2 streamlines protein structural modeling by automating workflows, improving code adaptability, and optimizing data management for large-scale applications. 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