{"id":"https://openalex.org/W2972808734","doi":"https://doi.org/10.1145/3307339.3343865","title":"A Histogram-based Outlier Profile for Atomic Structures Derived from Cryo-Electron Microscopy","display_name":"A Histogram-based Outlier Profile for Atomic Structures Derived from Cryo-Electron Microscopy","publication_year":2019,"publication_date":"2019-09-04","ids":{"openalex":"https://openalex.org/W2972808734","doi":"https://doi.org/10.1145/3307339.3343865","mag":"2972808734","pmid":"https://pubmed.ncbi.nlm.nih.gov/35838364"},"language":"en","primary_location":{"id":"doi:10.1145/3307339.3343865","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3307339.3343865","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3307339.3343865","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://dl.acm.org/doi/pdf/10.1145/3307339.3343865","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100443820","display_name":"Lin Chen","orcid":"https://orcid.org/0000-0003-4798-6199"},"institutions":[{"id":"https://openalex.org/I102716817","display_name":"Valdosta State University","ror":"https://ror.org/04zjcaq85","country_code":"US","type":"education","lineage":["https://openalex.org/I102716817"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lin Chen","raw_affiliation_strings":["Valdosta State University, Valdosta, GA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Valdosta State University, Valdosta, GA, USA","institution_ids":["https://openalex.org/I102716817"]}]},{"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":["Old Dominion University, Norfolk, VA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Old Dominion University, Norfolk, VA, USA","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":0.5275,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.81596244,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"2019","issue":null,"first_page":"586","last_page":"591"},"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":0.9998000264167786,"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":0.9998000264167786,"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/T11162","display_name":"Enzyme Structure and Function","score":0.9980000257492065,"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"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9972000122070312,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/histogram","display_name":"Histogram","score":0.8214638233184814},{"id":"https://openalex.org/keywords/cryo-electron-microscopy","display_name":"Cryo-electron microscopy","score":0.6777864694595337},{"id":"https://openalex.org/keywords/outlier","display_name":"Outlier","score":0.5887332558631897},{"id":"https://openalex.org/keywords/resolution","display_name":"Resolution (logic)","score":0.5858820676803589},{"id":"https://openalex.org/keywords/electron-density","display_name":"Electron density","score":0.5296518802642822},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4309748411178589},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.41781026124954224},{"id":"https://openalex.org/keywords/data-set","display_name":"Data set","score":0.4128870666027069},{"id":"https://openalex.org/keywords/crystallography","display_name":"Crystallography","score":0.4092632234096527},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.38957124948501587},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.34661948680877686},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.33675670623779297},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.3032236099243164},{"id":"https://openalex.org/keywords/electron","display_name":"Electron","score":0.2801551818847656},{"id":"https://openalex.org/keywords/image","display_name":"Image (mathematics)","score":0.21501672267913818},{"id":"https://openalex.org/keywords/nuclear-magnetic-resonance","display_name":"Nuclear magnetic resonance","score":0.1529718041419983}],"concepts":[{"id":"https://openalex.org/C53533937","wikidata":"https://www.wikidata.org/wiki/Q185020","display_name":"Histogram","level":3,"score":0.8214638233184814},{"id":"https://openalex.org/C20702342","wikidata":"https://www.wikidata.org/wiki/Q5190506","display_name":"Cryo-electron microscopy","level":2,"score":0.6777864694595337},{"id":"https://openalex.org/C79337645","wikidata":"https://www.wikidata.org/wiki/Q779824","display_name":"Outlier","level":2,"score":0.5887332558631897},{"id":"https://openalex.org/C138268822","wikidata":"https://www.wikidata.org/wiki/Q1051925","display_name":"Resolution (logic)","level":2,"score":0.5858820676803589},{"id":"https://openalex.org/C125485243","wikidata":"https://www.wikidata.org/wiki/Q905186","display_name":"Electron density","level":3,"score":0.5296518802642822},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4309748411178589},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.41781026124954224},{"id":"https://openalex.org/C58489278","wikidata":"https://www.wikidata.org/wiki/Q1172284","display_name":"Data set","level":2,"score":0.4128870666027069},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.4092632234096527},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.38957124948501587},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.34661948680877686},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.33675670623779297},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.3032236099243164},{"id":"https://openalex.org/C147120987","wikidata":"https://www.wikidata.org/wiki/Q2225","display_name":"Electron","level":2,"score":0.2801551818847656},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.21501672267913818},{"id":"https://openalex.org/C46141821","wikidata":"https://www.wikidata.org/wiki/Q209402","display_name":"Nuclear magnetic resonance","level":1,"score":0.1529718041419983},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1145/3307339.3343865","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3307339.3343865","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3307339.3343865","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics","raw_type":"proceedings-article"},{"id":"pmid:35838364","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35838364","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"ACM-BCB ... ... : the ... ACM Conference on Bioinformatics, Computational Biology and Biomedicine. ACM Conference on Bioinformatics, Computational Biology and Biomedicine","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:9279010","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9279010","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ACM BCB","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1145/3307339.3343865","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3307339.3343865","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3307339.3343865","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics","raw_type":"proceedings-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3207573149","display_name":null,"funder_award_id":"R01-GM062968","funder_id":"https://openalex.org/F4320337373","funder_display_name":"Center for Information Technology"},{"id":"https://openalex.org/G4838886571","display_name":null,"funder_award_id":"NSF DBI-1356621","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5933034863","display_name":null,"funder_award_id":"R01-GM062968","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7653831880","display_name":null,"funder_award_id":"DBI-1356621","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7737511110","display_name":"ABI Innovation: Advanced informatics and effective algorithms to enable CryoEM protein structure prediction and density analysis","funder_award_id":"1356621","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7873571683","display_name":null,"funder_award_id":"1356621","funder_id":"https://openalex.org/F4320337398","funder_display_name":"Division of Biological Infrastructure"},{"id":"https://openalex.org/G8196511278","display_name":null,"funder_award_id":"R01-GM062968","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8288036582","display_name":null,"funder_award_id":"NIH R01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G835039876","display_name":null,"funder_award_id":"NIH R01-GM062968","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337373","display_name":"Center for Information Technology","ror":"https://ror.org/03jh5a977"},{"id":"https://openalex.org/F4320337398","display_name":"Division of Biological Infrastructure","ror":"https://ror.org/04qn9mx93"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2972808734.pdf","grobid_xml":"https://content.openalex.org/works/W2972808734.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W1503688477","https://openalex.org/W1567417568","https://openalex.org/W1966403038","https://openalex.org/W1986191025","https://openalex.org/W2013083986","https://openalex.org/W2021715704","https://openalex.org/W2034235254","https://openalex.org/W2049902088","https://openalex.org/W2051925784","https://openalex.org/W2082900836","https://openalex.org/W2086812659","https://openalex.org/W2088933990","https://openalex.org/W2094614903","https://openalex.org/W2117756276","https://openalex.org/W2124464974","https://openalex.org/W2128484254","https://openalex.org/W2131639373","https://openalex.org/W2133442602","https://openalex.org/W2154714625","https://openalex.org/W2156118208","https://openalex.org/W2325521056","https://openalex.org/W2337311157","https://openalex.org/W2742535823","https://openalex.org/W2765322245","https://openalex.org/W2765612190","https://openalex.org/W2769644447","https://openalex.org/W2773765225","https://openalex.org/W2775096538","https://openalex.org/W2775458966","https://openalex.org/W2775807843","https://openalex.org/W2784280609","https://openalex.org/W2791670278","https://openalex.org/W2791783580","https://openalex.org/W2793788402","https://openalex.org/W2805746983","https://openalex.org/W2887998529","https://openalex.org/W4240984768","https://openalex.org/W4244617267","https://openalex.org/W6672875688","https://openalex.org/W6759572442"],"related_works":["https://openalex.org/W2899084033","https://openalex.org/W2609981634","https://openalex.org/W1498259939","https://openalex.org/W1983610137","https://openalex.org/W2726222394","https://openalex.org/W2181817726","https://openalex.org/W2045615005","https://openalex.org/W4235736048","https://openalex.org/W2098144668","https://openalex.org/W3013808405"],"abstract_inverted_index":{"As":[0],"more":[1],"atomic":[2],"structures":[3,15,29,91,101,132,149],"are":[4],"determined":[5],"from":[6,50,77,134,151],"cryo-electron":[7],"microscopy":[8],"(cryo-EM)":[9],"density":[10,51,138,152],"maps,":[11],"validation":[12,73],"of":[13,27,89,100,108,148],"such":[14],"is":[16,96],"an":[17,141],"important":[18],"task.":[19],"We":[20,129],"report":[21],"findings":[22],"after":[23,93],"analyzing":[24],"the":[25,78,86],"change":[26],"cryo-EM":[28,47],"in":[30,122],"a":[31],"comparison":[32],"between":[33,42],"those":[34,40],"released":[35,41,92,102],"by":[36],"December":[37,94],"2016":[38,95],"and":[39,44,72,120],"2017":[43],"2019.":[45],"The":[46,82,105],"models":[48],"created":[49],"maps":[52,139,153],"with":[53,154],"resolution":[54,137],"better":[55,97],"than":[56,98,126],"6":[57],"\u00c5":[58,136,156],"were":[59,75],"divided":[60],"into":[61],"six":[62],"data":[63],"sets.":[64],"A":[65],"histogram-based":[66],"outlier":[67],"score":[68],"(HBOS)":[69],"was":[70],"implemented":[71],"reports":[74],"collected":[76],"Protein":[79],"Data":[80],"Bank.":[81],"results":[83],"suggest":[84],"that":[85,99,131,147],"overall":[87],"quality":[88],"EM":[90],"before":[103],"2017.":[104],"conformation":[106],"qualities":[107],"most":[109],"residue":[110],"types":[111],"might":[112],"have":[113,140],"been":[114],"improved,":[115],"except":[116],"for":[117],"Leucine,":[118],"Phenylalanine,":[119],"Serine":[121],"high-resolution":[123],"datasets":[124],"(higher":[125],"4":[127],"\u00c5).":[128],"observe":[130],"solved":[133],"0-4":[135],"almost":[142],"identical":[143],"HBOS":[144],"profile":[145],"as":[146],"derived":[150],"4-6":[155],"resolution.":[157]},"counts_by_year":[{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}