{"id":"https://openalex.org/W2156381947","doi":"https://doi.org/10.1145/2382936.2382980","title":"Memory-based local search for simplified protein structure prediction","display_name":"Memory-based local search for simplified protein structure prediction","publication_year":2012,"publication_date":"2012-10-07","ids":{"openalex":"https://openalex.org/W2156381947","doi":"https://doi.org/10.1145/2382936.2382980","mag":"2156381947"},"language":"en","primary_location":{"id":"doi:10.1145/2382936.2382980","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2382936.2382980","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Biomedicine","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5067504579","display_name":"Swakkhar Shatabda","orcid":"https://orcid.org/0000-0003-0669-072X"},"institutions":[{"id":"https://openalex.org/I11701301","display_name":"Griffith University","ror":"https://ror.org/02sc3r913","country_code":"AU","type":"education","lineage":["https://openalex.org/I11701301"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Swakkhar Shatabda","raw_affiliation_strings":["Griffith University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Griffith University","institution_ids":["https://openalex.org/I11701301"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086354302","display_name":"M. A. Hakim Newton","orcid":"https://orcid.org/0000-0001-5655-0683"},"institutions":[{"id":"https://openalex.org/I11701301","display_name":"Griffith University","ror":"https://ror.org/02sc3r913","country_code":"AU","type":"education","lineage":["https://openalex.org/I11701301"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"M. A. Hakim Newton","raw_affiliation_strings":["Griffith University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Griffith University","institution_ids":["https://openalex.org/I11701301"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033848427","display_name":"Duc Nghia Pham","orcid":"https://orcid.org/0009-0001-8985-017X"},"institutions":[{"id":"https://openalex.org/I11701301","display_name":"Griffith University","ror":"https://ror.org/02sc3r913","country_code":"AU","type":"education","lineage":["https://openalex.org/I11701301"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Duc Nghia Pham","raw_affiliation_strings":["Griffith University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Griffith University","institution_ids":["https://openalex.org/I11701301"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5038675407","display_name":"Abdul Sattar","orcid":"https://orcid.org/0000-0002-2567-2052"},"institutions":[{"id":"https://openalex.org/I11701301","display_name":"Griffith University","ror":"https://ror.org/02sc3r913","country_code":"AU","type":"education","lineage":["https://openalex.org/I11701301"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Abdul Sattar","raw_affiliation_strings":["Griffith University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Griffith University","institution_ids":["https://openalex.org/I11701301"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I11701301"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":17,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"345","last_page":"352"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9983000159263611,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9983000159263611,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.996399998664856,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9876000285148621,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6426611542701721},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.49841976165771484},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.34330132603645325},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.26559725403785706},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.09197467565536499}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6426611542701721},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.49841976165771484},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.34330132603645325},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.26559725403785706},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.09197467565536499},{"id":"https://openalex.org/C46141821","wikidata":"https://www.wikidata.org/wiki/Q209402","display_name":"Nuclear magnetic resonance","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1145/2382936.2382980","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2382936.2382980","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Biomedicine","raw_type":"proceedings-article"},{"id":"pmh:oai:research-repository.griffith.edu.au:10072/48902","is_oa":false,"landing_page_url":"http://hdl.handle.net/10072/48902","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Conference output"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/7","display_name":"Affordable and clean energy","score":0.6100000143051147}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":47,"referenced_works":["https://openalex.org/W221306121","https://openalex.org/W1528015358","https://openalex.org/W1539892855","https://openalex.org/W1544223463","https://openalex.org/W1591532012","https://openalex.org/W1640378004","https://openalex.org/W1648987778","https://openalex.org/W1787433968","https://openalex.org/W1845127254","https://openalex.org/W1856808464","https://openalex.org/W1969449362","https://openalex.org/W1975017420","https://openalex.org/W1984527736","https://openalex.org/W1989353689","https://openalex.org/W2002930355","https://openalex.org/W2009175282","https://openalex.org/W2010150366","https://openalex.org/W2019158263","https://openalex.org/W2020498246","https://openalex.org/W2041709810","https://openalex.org/W2045777307","https://openalex.org/W2051646486","https://openalex.org/W2053846587","https://openalex.org/W2062175659","https://openalex.org/W2063087637","https://openalex.org/W2078956300","https://openalex.org/W2083821542","https://openalex.org/W2092292464","https://openalex.org/W2095075745","https://openalex.org/W2095435811","https://openalex.org/W2124848384","https://openalex.org/W2126362472","https://openalex.org/W2137105118","https://openalex.org/W2139415631","https://openalex.org/W2143366433","https://openalex.org/W2154811699","https://openalex.org/W2162042205","https://openalex.org/W2170471837","https://openalex.org/W2314094516","https://openalex.org/W2568071683","https://openalex.org/W2886362482","https://openalex.org/W2913205451","https://openalex.org/W4293662999","https://openalex.org/W4297953369","https://openalex.org/W6643235220","https://openalex.org/W6683598110","https://openalex.org/W7024060579"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2478288626","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655"],"abstract_inverted_index":{"Protein":[0],"structure":[1,84],"prediction":[2,85],"is":[3,25],"one":[4],"of":[5,22,89],"the":[6,23,34,38,52,77],"most":[7],"challenging":[8],"problems":[9],"in":[10],"computational":[11],"biology.":[12],"Given":[13],"a":[14,19,46,87],"protein's":[15],"amino":[16,39],"acid":[17],"sequence,":[18],"simplified":[20,53],"version":[21],"problem":[24,54],"to":[26],"find":[27],"an":[28],"on-lattice":[29],"self-avoiding":[30],"walk":[31],"that":[32],"minimizes":[33],"interaction":[35],"energy":[36,57],"among":[37],"acids.":[40],"In":[41],"this":[42],"paper,":[43],"we":[44],"present":[45],"memory-based":[47],"local":[48,66,79],"search":[49,80],"method":[50,81],"for":[51,82],"using":[55],"Hydrophobic-Polar":[56],"model":[58],"and":[59,68],"Face":[60],"Centered":[61],"Cubic":[62],"lattice.":[63],"By":[64],"memorizing":[65],"minima":[67],"then":[69],"avoiding":[70],"their":[71],"neighbohood,":[72],"our":[73],"approach":[74],"significantly":[75],"improves":[76],"state-of-the-art":[78],"protein":[83],"on":[86],"set":[88],"standard":[90],"benchmark":[91],"proteins.":[92]},"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":7}],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}
