{"id":"https://openalex.org/W2054116168","doi":"https://doi.org/10.1145/2506583.2506707","title":"Beta-sheet Detection and Representation from Medium Resolution Cryo-EM Density Maps","display_name":"Beta-sheet Detection and Representation from Medium Resolution Cryo-EM Density Maps","publication_year":2013,"publication_date":"2013-09-22","ids":{"openalex":"https://openalex.org/W2054116168","doi":"https://doi.org/10.1145/2506583.2506707","mag":"2054116168"},"language":"en","primary_location":{"id":"doi:10.1145/2506583.2506707","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2506583.2506707","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the International Conference on Bioinformatics, Computational Biology and Biomedical Informatics","raw_type":"proceedings-article"},"type":"article","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/A5080683855","display_name":"Dong Si","orcid":"https://orcid.org/0000-0001-7039-2589"},"institutions":[{"id":"https://openalex.org/I81365321","display_name":"Old Dominion University","ror":"https://ror.org/04zjtrb98","country_code":"US","type":"education","lineage":["https://openalex.org/I81365321"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dong Si","raw_affiliation_strings":["Department of Computer Science, Old Dominion University, Norfolk, VA","Department of Computer Science, Old Dominion University, Norfolk, VA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Old Dominion University, Norfolk, VA","institution_ids":["https://openalex.org/I81365321"]},{"raw_affiliation_string":"Department of Computer Science, Old Dominion University, Norfolk, VA#TAB#","institution_ids":["https://openalex.org/I81365321"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049641499","display_name":"Jing He","orcid":"https://orcid.org/0000-0002-7249-4746"},"institutions":[{"id":"https://openalex.org/I81365321","display_name":"Old Dominion University","ror":"https://ror.org/04zjtrb98","country_code":"US","type":"education","lineage":["https://openalex.org/I81365321"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jing He","raw_affiliation_strings":["Department of Computer Science, Old Dominion University, Norfolk, VA","Department of Computer Science, Old Dominion University, Norfolk, VA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Old Dominion University, Norfolk, VA","institution_ids":["https://openalex.org/I81365321"]},{"raw_affiliation_string":"Department of Computer Science, Old Dominion University, Norfolk, VA#TAB#","institution_ids":["https://openalex.org/I81365321"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":7.6197,"has_fulltext":false,"cited_by_count":48,"citation_normalized_percentile":{"value":0.96360809,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":null,"issue":null,"first_page":"764","last_page":"770"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10857","display_name":"Advanced Electron Microscopy Techniques and Applications","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural 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/T10857","display_name":"Advanced Electron Microscopy Techniques and Applications","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural 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/T12039","display_name":"Electron and X-Ray Spectroscopy Techniques","score":0.9919999837875366,"subfield":{"id":"https://openalex.org/subfields/2508","display_name":"Surfaces, Coatings and Films"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9918000102043152,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/piecewise","display_name":"Piecewise","score":0.5869799852371216},{"id":"https://openalex.org/keywords/voxel","display_name":"Voxel","score":0.5797533988952637},{"id":"https://openalex.org/keywords/cryo-electron-microscopy","display_name":"Cryo-electron microscopy","score":0.5597631931304932},{"id":"https://openalex.org/keywords/resolution","display_name":"Resolution (logic)","score":0.5475429892539978},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.5415276885032654},{"id":"https://openalex.org/keywords/surface","display_name":"Surface (topology)","score":0.4906565248966217},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4485899806022644},{"id":"https://openalex.org/keywords/feature","display_name":"Feature (linguistics)","score":0.4341520071029663},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4326092004776001},{"id":"https://openalex.org/keywords/image-resolution","display_name":"Image resolution","score":0.43105530738830566},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.4182780086994171},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.41303688287734985},{"id":"https://openalex.org/keywords/geometry","display_name":"Geometry","score":0.2701183259487152},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2436354160308838},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.16467824578285217},{"id":"https://openalex.org/keywords/mathematical-analysis","display_name":"Mathematical analysis","score":0.0839177668094635}],"concepts":[{"id":"https://openalex.org/C164660894","wikidata":"https://www.wikidata.org/wiki/Q2037833","display_name":"Piecewise","level":2,"score":0.5869799852371216},{"id":"https://openalex.org/C54170458","wikidata":"https://www.wikidata.org/wiki/Q663554","display_name":"Voxel","level":2,"score":0.5797533988952637},{"id":"https://openalex.org/C20702342","wikidata":"https://www.wikidata.org/wiki/Q5190506","display_name":"Cryo-electron microscopy","level":2,"score":0.5597631931304932},{"id":"https://openalex.org/C138268822","wikidata":"https://www.wikidata.org/wiki/Q1051925","display_name":"Resolution (logic)","level":2,"score":0.5475429892539978},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.5415276885032654},{"id":"https://openalex.org/C2776799497","wikidata":"https://www.wikidata.org/wiki/Q484298","display_name":"Surface (topology)","level":2,"score":0.4906565248966217},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4485899806022644},{"id":"https://openalex.org/C2776401178","wikidata":"https://www.wikidata.org/wiki/Q12050496","display_name":"Feature (linguistics)","level":2,"score":0.4341520071029663},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4326092004776001},{"id":"https://openalex.org/C205372480","wikidata":"https://www.wikidata.org/wiki/Q210521","display_name":"Image resolution","level":2,"score":0.43105530738830566},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4182780086994171},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.41303688287734985},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.2701183259487152},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2436354160308838},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.16467824578285217},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0839177668094635},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0},{"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":1,"locations":[{"id":"doi:10.1145/2506583.2506707","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2506583.2506707","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the International Conference on Bioinformatics, Computational Biology and Biomedical Informatics","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":40,"referenced_works":["https://openalex.org/W1481529529","https://openalex.org/W1493984094","https://openalex.org/W1541263375","https://openalex.org/W1558317748","https://openalex.org/W1838465562","https://openalex.org/W1964983194","https://openalex.org/W1966323820","https://openalex.org/W1973085242","https://openalex.org/W1985735376","https://openalex.org/W1987564900","https://openalex.org/W1994086483","https://openalex.org/W1998997744","https://openalex.org/W2005752630","https://openalex.org/W2006158980","https://openalex.org/W2035460215","https://openalex.org/W2043361746","https://openalex.org/W2048937426","https://openalex.org/W2053880783","https://openalex.org/W2059567258","https://openalex.org/W2061197399","https://openalex.org/W2067987159","https://openalex.org/W2070524991","https://openalex.org/W2078059979","https://openalex.org/W2080333910","https://openalex.org/W2094869942","https://openalex.org/W2095748904","https://openalex.org/W2096732301","https://openalex.org/W2101298197","https://openalex.org/W2137747821","https://openalex.org/W2138562699","https://openalex.org/W2143845740","https://openalex.org/W2147791333","https://openalex.org/W2149476505","https://openalex.org/W2150938882","https://openalex.org/W2152086886","https://openalex.org/W2155089380","https://openalex.org/W2165242943","https://openalex.org/W2169358216","https://openalex.org/W2169799657","https://openalex.org/W2398350456"],"related_works":["https://openalex.org/W2362774332","https://openalex.org/W4249245269","https://openalex.org/W2025681766","https://openalex.org/W2765548132","https://openalex.org/W2791422888","https://openalex.org/W2949855111","https://openalex.org/W3006716706","https://openalex.org/W2542402767","https://openalex.org/W2991204057","https://openalex.org/W3023086044"],"abstract_inverted_index":{"Secondary":[0],"structure":[1,15],"element":[2],"(SSE)":[3],"identification":[4],"from":[5,30,56,116,168],"volumetric":[6],"protein":[7],"density":[8,32,58,77,152,171],"maps":[9,59,121],"is":[10,46,92,156],"critical":[11],"for":[12,164],"de-novo":[13],"backbone":[14],"derivation":[16],"in":[17,94],"electron":[18],"cryo-microscopy":[19],"(cryoEM).":[20],"Although":[21],"multiple":[22],"methods":[23],"have":[24],"been":[25],"developed":[26],"to":[27,49,83,110,133],"detect":[28,50],"SSE":[29,52],"the":[31,51,72,75,96,101,117,135,151,154,165],"maps,":[33],"accurate":[34],"detection":[35,167],"either":[36,71],"need":[37],"use":[38],"intervention":[39],"or":[40,78],"carefully":[41],"adjusting":[42],"various":[43],"parameters.":[44],"It":[45,138],"still":[47],"challenging":[48],"automatically":[53,111],"and":[54,114,153],"accurately":[55],"cryoEM":[57,118,143],"at":[60,122],"medium":[61,123,169],"resolutions":[62],"(~5-10\u00c5).":[63],"A":[64],"detected":[65,145],"\u03b2-sheet":[66,76,136],"can":[67,161],"be":[68,162],"represented":[69],"by":[70,79,146],"voxels":[73],"of":[74,90,100],"many":[80],"piecewise":[81],"polygons":[82],"compose":[84],"a":[85,129],"rough":[86],"surface.":[87],"However,":[88],"none":[89],"these":[91],"effective":[93,106],"capturing":[95],"global":[97],"surface":[98],"feature":[99],"\u03b2-sheet.":[102],"We":[103],"present":[104,128],"an":[105],"single-parameter":[107],"approach,":[108],"SSEtracer,":[109],"identify":[112],"helices":[113],"\u03b2-sheets":[115,144],"three-dimensional":[119],"(3D)":[120],"resolutions.":[124],"More":[125],"importantly,":[126],"we":[127],"simple":[130],"mathematical":[131,159],"model":[132,155,160],"represent":[134],"density.":[137],"was":[139],"tested":[140],"using":[141],"eleven":[142],"SSEtracer.":[147],"The":[148,158],"RMSE":[149],"between":[150],"1.88\u00c5.":[157],"used":[163],"\u03b2-strands":[166],"resolution":[170],"maps.":[172]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":10},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":5},{"year":2014,"cited_by_count":5}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
