{"id":"https://openalex.org/W2887998529","doi":"https://doi.org/10.1145/3233547.3233709","title":"Using Combined Features to Analyze Atomic Structures derived from Cryo-EM Density Maps","display_name":"Using Combined Features to Analyze Atomic Structures derived from Cryo-EM Density Maps","publication_year":2018,"publication_date":"2018-08-15","ids":{"openalex":"https://openalex.org/W2887998529","doi":"https://doi.org/10.1145/3233547.3233709","mag":"2887998529","pmid":"https://pubmed.ncbi.nlm.nih.gov/37434945"},"language":"en","primary_location":{"id":"doi:10.1145/3233547.3233709","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3233547.3233709","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3233547.3233709","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2018 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/10.1145/3233547.3233709","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100443832","display_name":"Lin Chen","orcid":"https://orcid.org/0009-0009-0631-1575"},"institutions":[{"id":"https://openalex.org/I65399651","display_name":"Elizabeth City State University","ror":"https://ror.org/02n5cs023","country_code":"US","type":"education","lineage":["https://openalex.org/I65399651"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lin Chen","raw_affiliation_strings":["Elizabeth City State University, Elizabeth City, NC, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Elizabeth City State University, Elizabeth City, NC, USA","institution_ids":["https://openalex.org/I65399651"]}]},{"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":0.5719,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.80230947,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"2018","issue":null,"first_page":"651","last_page":"655"},"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":0.9994000196456909,"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":0.9994000196456909,"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":0.9994000196456909,"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":0.9945999979972839,"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/cryo-electron-microscopy","display_name":"Cryo-electron microscopy","score":0.8582236766815186},{"id":"https://openalex.org/keywords/histogram","display_name":"Histogram","score":0.6807987689971924},{"id":"https://openalex.org/keywords/resolution","display_name":"Resolution (logic)","score":0.6335621476173401},{"id":"https://openalex.org/keywords/outlier","display_name":"Outlier","score":0.5756038427352905},{"id":"https://openalex.org/keywords/electron-density","display_name":"Electron density","score":0.5754780173301697},{"id":"https://openalex.org/keywords/anomaly","display_name":"Anomaly (physics)","score":0.537183403968811},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.4650750160217285},{"id":"https://openalex.org/keywords/anomaly-detection","display_name":"Anomaly detection","score":0.4627992808818817},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.23771193623542786},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.23574885725975037},{"id":"https://openalex.org/keywords/image","display_name":"Image (mathematics)","score":0.21340808272361755},{"id":"https://openalex.org/keywords/electron","display_name":"Electron","score":0.19671028852462769},{"id":"https://openalex.org/keywords/nuclear-magnetic-resonance","display_name":"Nuclear magnetic resonance","score":0.15895766019821167},{"id":"https://openalex.org/keywords/condensed-matter-physics","display_name":"Condensed matter physics","score":0.09260249137878418}],"concepts":[{"id":"https://openalex.org/C20702342","wikidata":"https://www.wikidata.org/wiki/Q5190506","display_name":"Cryo-electron microscopy","level":2,"score":0.8582236766815186},{"id":"https://openalex.org/C53533937","wikidata":"https://www.wikidata.org/wiki/Q185020","display_name":"Histogram","level":3,"score":0.6807987689971924},{"id":"https://openalex.org/C138268822","wikidata":"https://www.wikidata.org/wiki/Q1051925","display_name":"Resolution (logic)","level":2,"score":0.6335621476173401},{"id":"https://openalex.org/C79337645","wikidata":"https://www.wikidata.org/wiki/Q779824","display_name":"Outlier","level":2,"score":0.5756038427352905},{"id":"https://openalex.org/C125485243","wikidata":"https://www.wikidata.org/wiki/Q905186","display_name":"Electron density","level":3,"score":0.5754780173301697},{"id":"https://openalex.org/C12997251","wikidata":"https://www.wikidata.org/wiki/Q567560","display_name":"Anomaly (physics)","level":2,"score":0.537183403968811},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.4650750160217285},{"id":"https://openalex.org/C739882","wikidata":"https://www.wikidata.org/wiki/Q3560506","display_name":"Anomaly detection","level":2,"score":0.4627992808818817},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.23771193623542786},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.23574885725975037},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.21340808272361755},{"id":"https://openalex.org/C147120987","wikidata":"https://www.wikidata.org/wiki/Q2225","display_name":"Electron","level":2,"score":0.19671028852462769},{"id":"https://openalex.org/C46141821","wikidata":"https://www.wikidata.org/wiki/Q209402","display_name":"Nuclear magnetic resonance","level":1,"score":0.15895766019821167},{"id":"https://openalex.org/C26873012","wikidata":"https://www.wikidata.org/wiki/Q214781","display_name":"Condensed matter physics","level":1,"score":0.09260249137878418},{"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:10.1145/3233547.3233709","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3233547.3233709","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3233547.3233709","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics","raw_type":"proceedings-article"},{"id":"pmid:37434945","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37434945","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:10335752","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10335752","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10335752/pdf/nihms-1662236.pdf","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:10.1145/3233547.3233709","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3233547.3233709","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3233547.3233709","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics","raw_type":"proceedings-article"},"sustainable_development_goals":[],"awards":[{"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/G7608334138","display_name":null,"funder_award_id":"4T34GM100831-05","funder_id":"https://openalex.org/F4320337376","funder_display_name":"NIH Clinical Center"},{"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"},{"id":"https://openalex.org/G8440735796","display_name":null,"funder_award_id":"NIH 4T34GM100831-05","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/F4320337376","display_name":"NIH Clinical Center","ror":"https://ror.org/04vfsmv21"},{"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/W2887998529.pdf","grobid_xml":"https://content.openalex.org/works/W2887998529.grobid-xml"},"referenced_works_count":31,"referenced_works":["https://openalex.org/W1567417568","https://openalex.org/W1966403038","https://openalex.org/W1968091975","https://openalex.org/W1986191025","https://openalex.org/W1988200737","https://openalex.org/W1996607909","https://openalex.org/W2011658408","https://openalex.org/W2013083986","https://openalex.org/W2018127105","https://openalex.org/W2021715704","https://openalex.org/W2049902088","https://openalex.org/W2072834874","https://openalex.org/W2074986801","https://openalex.org/W2088933990","https://openalex.org/W2109872885","https://openalex.org/W2124464974","https://openalex.org/W2130479394","https://openalex.org/W2131639373","https://openalex.org/W2133442602","https://openalex.org/W2134216529","https://openalex.org/W2146442590","https://openalex.org/W2154714625","https://openalex.org/W2156118208","https://openalex.org/W2180229411","https://openalex.org/W2337311157","https://openalex.org/W2769644447","https://openalex.org/W2793788402","https://openalex.org/W4229743141","https://openalex.org/W6679573413","https://openalex.org/W6746086362","https://openalex.org/W6810858104"],"related_works":["https://openalex.org/W3006513224","https://openalex.org/W2046456988","https://openalex.org/W2357409937","https://openalex.org/W2499612753","https://openalex.org/W3111802945","https://openalex.org/W2946096271","https://openalex.org/W4367857133","https://openalex.org/W2295423552","https://openalex.org/W1598471830","https://openalex.org/W3107369729"],"abstract_inverted_index":{"Cryo-electron":[0],"microscopy":[1],"(cryo-EM)":[2],"has":[3],"become":[4],"a":[5,44,52,88],"major":[6],"technique":[7],"for":[8,93],"protein":[9,97],"structure":[10],"determination.":[11],"Many":[12],"atomic":[13],"structures":[14,61],"have":[15,43],"been":[16],"derived":[17,62,109,162,168],"from":[18,63,74,100,110],"cryo-EM":[19,75,101,145,160],"density":[20,32,54,65,76,102],"maps":[21,33,66,77],"of":[22,134,139,155],"about":[23],"3\u00c5":[24],"resolution.":[25],"Side-chain":[26],"conformations":[27],"are":[28],"well":[29],"determined":[30],"in":[31,96,143,148,159],"with":[34,67,78],"super-resolutions":[35],"such":[36],"as":[37,114],"1-2\u00c5.":[38],"It":[39],"is":[40],"desirable":[41],"to":[42,47],"statistical":[45],"method":[46,105],"detect":[48],"anomalous":[49],"side-chains":[50],"without":[51],"super-resolution":[53,150],"map.":[55],"In":[56],"this":[57],"study,":[58],"we":[59],"analyzed":[60],"X-ray":[64,111,151],"higher":[68],"than":[69,147,166],"1.5\u00c5":[70],"resolution":[71],"and":[72,81,117,130],"those":[73,167],"2-4":[79],"\u00c5":[80,83],"4-6":[82],"resolutions":[84],"respectively.":[85],"We":[86],"introduce":[87],"histogram-based":[89],"outlier":[90],"score":[91],"(HBOS)":[92],"anomaly":[94],"detection":[95],"models":[98,146,161],"built":[99],"maps.":[103],"This":[104],"uses":[106],"the":[107,115,122,135,144,149],"statistics":[108],"dataset":[112],"(<1.5\u00c5)":[113],"reference":[116],"combines":[118],"five":[119],"features":[120],"involving":[121],"distal":[123],"block":[124],"distance,":[125],"side-chain":[126],"length,":[127],"phi,":[128],"psi,":[129],"first":[131],"chi":[132],"angle":[133],"residue.":[136],"Higher":[137],"percentages":[138,154],"anomalies":[140,156],"were":[141,157],"observed":[142,158],"models.":[152],"Lower":[153],"after":[163],"January":[164],"2017":[165],"before":[169],"2017.":[170]},"counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
