{"id":"https://openalex.org/W2888515051","doi":"https://doi.org/10.1145/3233547.3233714","title":"Low Rank Smoothed Sampling Methods for Identifying Impactful Pairwise Mutations","display_name":"Low Rank Smoothed Sampling Methods for Identifying Impactful Pairwise Mutations","publication_year":2018,"publication_date":"2018-08-15","ids":{"openalex":"https://openalex.org/W2888515051","doi":"https://doi.org/10.1145/3233547.3233714","mag":"2888515051"},"language":"en","primary_location":{"id":"doi:10.1145/3233547.3233714","doi":"https://doi.org/10.1145/3233547.3233714","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3233547.3233714","pdf_url":null,"source":{"id":"https://openalex.org/S7407087958","display_name":"ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM-BCB)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"conference"},"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"},"volume":null,"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/A5018664632","display_name":"Nicholas Majeske","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I52669646","display_name":"Western Washington University","ror":"https://ror.org/05wn7r715","country_code":"US","type":"education","lineage":["https://openalex.org/I52669646"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nicholas Majeske","raw_affiliation_strings":["Western Washington University, Bellingham, WA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Western Washington University, Bellingham, WA, USA","institution_ids":["https://openalex.org/I52669646"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046109728","display_name":"Filip Jagodzinski","orcid":"https://orcid.org/0000-0001-7783-2241","observed_orcids":["https://orcid.org/0000-0001-7783-2241"]},"institutions":[{"id":"https://openalex.org/I52669646","display_name":"Western Washington University","ror":"https://ror.org/05wn7r715","country_code":"US","type":"education","lineage":["https://openalex.org/I52669646"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Filip Jagodzinski","raw_affiliation_strings":["Western Washington University, Bellingham, WA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Western Washington University, Bellingham, WA, USA","institution_ids":["https://openalex.org/I52669646"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033912251","display_name":"Brian Hutchinson","orcid":"https://orcid.org/0000-0002-5537-008X","observed_orcids":["https://orcid.org/0000-0002-5537-008X"]},"institutions":[{"id":"https://openalex.org/I52669646","display_name":"Western Washington University","ror":"https://ror.org/05wn7r715","country_code":"US","type":"education","lineage":["https://openalex.org/I52669646"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brian Hutchinson","raw_affiliation_strings":["Western Washington University, Bellingham, WA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Western Washington University, Bellingham, WA, USA","institution_ids":["https://openalex.org/I52669646"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5002465410","display_name":"Tanzima Zerin Islam","orcid":"https://orcid.org/0000-0003-2877-5871","observed_orcids":["https://orcid.org/0000-0003-2877-5871"]},"institutions":[{"id":"https://openalex.org/I52669646","display_name":"Western Washington University","ror":"https://ror.org/05wn7r715","country_code":"US","type":"education","lineage":["https://openalex.org/I52669646"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tanzima Islam","raw_affiliation_strings":["Western Washington University, Bellingham, WA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Western Washington University, Bellingham, WA, USA","institution_ids":["https://openalex.org/I52669646"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I52669646"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.12777375,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"681","last_page":"686"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9926999807357788,"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":0.9926999807357788,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.002099999925121665,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.0008999999845400453,"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/protein-mutations","display_name":"protein mutations","score":0.5429999828338623},{"id":"https://openalex.org/keywords/protein-rigidity","display_name":"protein rigidity","score":0.6209999918937683},{"id":"https://openalex.org/keywords/protein-structure","display_name":"protein structure","score":0.36000001430511475},{"id":"https://openalex.org/keywords/sample-reduction","display_name":"sample reduction","score":0.328000009059906}],"concepts":[{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.643768310546875},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.6287553906440735},{"id":"https://openalex.org/C515207424","wikidata":"https://www.wikidata.org/wiki/Q8066","display_name":"Amino acid","level":2,"score":0.6246495842933655},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5928988456726074},{"id":"https://openalex.org/C143065580","wikidata":"https://www.wikidata.org/wiki/Q3285695","display_name":"Mutant","level":3,"score":0.5457354187965393},{"id":"https://openalex.org/C2993683473","wikidata":"https://www.wikidata.org/wiki/Q30693176","display_name":"Amino acid substitution","level":4,"score":0.5359939336776733},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.5334406495094299},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.47631463408470154},{"id":"https://openalex.org/C164226766","wikidata":"https://www.wikidata.org/wiki/Q7293202","display_name":"Rank (graph theory)","level":2,"score":0.43716496229171753},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.35630252957344055},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3208337724208832},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2570943832397461},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.21682745218276978},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1944969892501831},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.08571204543113708}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3233547.3233714","doi":"https://doi.org/10.1145/3233547.3233714","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3233547.3233714","pdf_url":null,"source":{"id":"https://openalex.org/S7407087958","display_name":"ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM-BCB)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"conference"},"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"}],"best_oa_location":null,"sustainable_development_goals":[],"sustainable_development_goals_aurora":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":31,"referenced_works":["https://openalex.org/W1823111029","https://openalex.org/W2004026774","https://openalex.org/W2019574765","https://openalex.org/W2024281488","https://openalex.org/W2025786614","https://openalex.org/W2031553026","https://openalex.org/W2041476324","https://openalex.org/W2064488723","https://openalex.org/W2076406620","https://openalex.org/W2093547815","https://openalex.org/W2111326065","https://openalex.org/W2121403868","https://openalex.org/W2121519777","https://openalex.org/W2125677968","https://openalex.org/W2127981150","https://openalex.org/W2130590409","https://openalex.org/W2132540199","https://openalex.org/W2136513422","https://openalex.org/W2140227530","https://openalex.org/W2145962650","https://openalex.org/W2149580316","https://openalex.org/W2151837043","https://openalex.org/W2165395308","https://openalex.org/W2170342322","https://openalex.org/W2173918725","https://openalex.org/W2428593791","https://openalex.org/W2558013981","https://openalex.org/W2746025270","https://openalex.org/W2765541315","https://openalex.org/W2809360952","https://openalex.org/W2916078022"],"related_works":["https://openalex.org/W3129816939","https://openalex.org/W2912862995","https://openalex.org/W2985427592","https://openalex.org/W2101501829","https://openalex.org/W2400569965","https://openalex.org/W2487162673","https://openalex.org/W3186625252","https://openalex.org/W2899747918","https://openalex.org/W2089387174","https://openalex.org/W2961176214"],"abstract_inverted_index":{"Even":[0],"a":[1,7,14,27,34,129,170],"single":[2,51],"amino":[3,52,69,94,115,152],"acid":[4,53,70,95,116,153],"substitution":[5],"in":[6,26,108,136],"protein":[8,28],"can":[9],"be":[10,40,86],"the":[11,19,48,60,78,90,99,119,126,132,137,147,150,161],"cause":[12],"of":[13,21,37,50,62,80,92,101,131,149,160],"debilitating":[15],"disease.":[16],"Experimentally":[17],"studying":[18,47],"effects":[20],"all":[22],"possible":[23,66,144],"multiple":[24],"mutations":[25,107],"is":[29,143,165],"infeasible":[30],"since":[31],"it":[32,142],"requires":[33],"combinatorial":[35],"number":[36,61],"mutants":[38,63,120,133],"to":[39,58,85,88,134,145],"engineered":[41],"and":[42,124],"assessed.":[43],"Computational":[44],"methods":[45],"for":[46,67,76,110],"impact":[49,91],"substitutions":[54,154],"do":[55],"not":[56],"scale":[57],"handling":[59],"that":[64,83,135],"are":[65],"two":[68,151],"substitutions.":[71,96],"We":[72,97,140],"present":[73],"an":[74],"approach":[75],"reducing":[77],"amount":[79],"mutation":[81],"samples":[82],"need":[84],"used":[87],"predict":[89],"pairwise":[93],"evaluate":[98],"effectiveness":[100],"our":[102],"method":[103],"by":[104,168],"generating":[105],"exhaustive":[106,138,162],"silico":[109],"8":[111],"proteins":[112],"with":[113],"2":[114],"substitutions,":[117],"analyzing":[118],"via":[121],"rigidity":[122],"analysis,":[123],"comparing":[125],"predictions":[127],"from":[128],"sample":[130],"dataset.":[139],"show":[141],"approximate":[146],"effect":[148],"using":[155],"as":[156,158],"little":[157],"25%":[159],"mutations,":[163],"which":[164],"further":[166],"improved":[167],"imposing":[169],"low":[171],"rank":[172],"constraint.":[173]},"counts_by_year":[{"year":2012,"cited_by_count":1}],"updated_date":"2026-10-05T09:50:58.205359","created_date":"2025-10-10T00:00:00"}
