{"id":"https://openalex.org/W3138488146","doi":"https://doi.org/10.1021/acs.jcim.0c01223","title":"Disentangling the Contribution of Each Descriptive Characteristic of Every Single Mutation to Its Functional Effects","display_name":"Disentangling the Contribution of Each Descriptive Characteristic of Every Single Mutation to Its Functional Effects","publication_year":2021,"publication_date":"2021-03-23","ids":{"openalex":"https://openalex.org/W3138488146","doi":"https://doi.org/10.1021/acs.jcim.0c01223","mag":"3138488146","pmid":"https://pubmed.ncbi.nlm.nih.gov/33754712"},"language":"en","primary_location":{"id":"doi:10.1021/acs.jcim.0c01223","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.0c01223","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5067885434","display_name":"C. K. Sruthi","orcid":"https://orcid.org/0000-0002-5476-3359"},"institutions":[{"id":"https://openalex.org/I147481903","display_name":"Jawaharlal Nehru Centre for Advanced Scientific Research","ror":"https://ror.org/0538gdx71","country_code":"IN","type":"facility","lineage":["https://openalex.org/I147481903","https://openalex.org/I2799351866","https://openalex.org/I4210098748","https://openalex.org/I4210134808"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"C. K. Sruthi","raw_affiliation_strings":["Theoretical Sciences Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore 560064, India"],"raw_orcid":"https://orcid.org/0000-0002-5476-3359","affiliations":[{"raw_affiliation_string":"Theoretical Sciences Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore 560064, India","institution_ids":["https://openalex.org/I147481903"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050629034","display_name":"Meher K. Prakash","orcid":"https://orcid.org/0000-0002-0091-4158"},"institutions":[{"id":"https://openalex.org/I147481903","display_name":"Jawaharlal Nehru Centre for Advanced Scientific Research","ror":"https://ror.org/0538gdx71","country_code":"IN","type":"facility","lineage":["https://openalex.org/I147481903","https://openalex.org/I2799351866","https://openalex.org/I4210098748","https://openalex.org/I4210134808"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Meher K. Prakash","raw_affiliation_strings":["Theoretical Sciences Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore 560064, India"],"raw_orcid":"https://orcid.org/0000-0002-0091-4158","affiliations":[{"raw_affiliation_string":"Theoretical Sciences Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore 560064, India","institution_ids":["https://openalex.org/I147481903"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5050629034"],"corresponding_institution_ids":["https://openalex.org/I147481903"],"apc_list":null,"apc_paid":null,"fwci":0.0801,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.32422251,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"61","issue":"4","first_page":"2090","last_page":"2098"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.996999979019165,"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"}},"topics":[{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.996999979019165,"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":0.9940000176429749,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9933000206947327,"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/mutation","display_name":"Mutation","score":0.5892337560653687},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5081377029418945},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.49871301651000977},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4627850651741028},{"id":"https://openalex.org/keywords/transparency","display_name":"Transparency (behavior)","score":0.42408400774002075},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.35776999592781067},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.27671992778778076},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2706358730792999},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.13618963956832886}],"concepts":[{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.5892337560653687},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5081377029418945},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.49871301651000977},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4627850651741028},{"id":"https://openalex.org/C2780233690","wikidata":"https://www.wikidata.org/wiki/Q535347","display_name":"Transparency (behavior)","level":2,"score":0.42408400774002075},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.35776999592781067},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27671992778778076},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2706358730792999},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.13618963956832886},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056510","descriptor_name":"Position-Specific Scoring Matrices","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056510","descriptor_name":"Position-Specific Scoring Matrices","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056510","descriptor_name":"Position-Specific Scoring Matrices","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1021/acs.jcim.0c01223","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jcim.0c01223","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},{"id":"pmid:33754712","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33754712","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":"Journal of chemical information and modeling","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.5199999809265137,"display_name":"Life in Land"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":54,"referenced_works":["https://openalex.org/W1031578623","https://openalex.org/W1493541064","https://openalex.org/W1683278196","https://openalex.org/W1975304761","https://openalex.org/W1982190126","https://openalex.org/W2008892949","https://openalex.org/W2029667189","https://openalex.org/W2042655455","https://openalex.org/W2046200242","https://openalex.org/W2060588922","https://openalex.org/W2077751281","https://openalex.org/W2084341220","https://openalex.org/W2101234009","https://openalex.org/W2103388411","https://openalex.org/W2125603952","https://openalex.org/W2127322768","https://openalex.org/W2129888542","https://openalex.org/W2139365100","https://openalex.org/W2143210482","https://openalex.org/W2151457629","https://openalex.org/W2151887741","https://openalex.org/W2158230102","https://openalex.org/W2159933659","https://openalex.org/W2215005393","https://openalex.org/W2245592118","https://openalex.org/W2282821441","https://openalex.org/W2295598076","https://openalex.org/W2330198382","https://openalex.org/W2510508396","https://openalex.org/W2535595233","https://openalex.org/W2589123659","https://openalex.org/W2618851150","https://openalex.org/W2740517540","https://openalex.org/W2774216375","https://openalex.org/W2781028774","https://openalex.org/W2797104734","https://openalex.org/W2804099821","https://openalex.org/W2890223884","https://openalex.org/W2892741787","https://openalex.org/W2898402099","https://openalex.org/W2909466649","https://openalex.org/W2941163443","https://openalex.org/W2972439184","https://openalex.org/W2973049920","https://openalex.org/W2998737920","https://openalex.org/W2999290641","https://openalex.org/W3010879523","https://openalex.org/W3022298391","https://openalex.org/W3038248848","https://openalex.org/W3045165849","https://openalex.org/W3102341076","https://openalex.org/W3102476541","https://openalex.org/W4300576158","https://openalex.org/W6834628200"],"related_works":["https://openalex.org/W2961085424","https://openalex.org/W4306674287","https://openalex.org/W3046775127","https://openalex.org/W3107602296","https://openalex.org/W4394896187","https://openalex.org/W3170094116","https://openalex.org/W4386462264","https://openalex.org/W4364306694","https://openalex.org/W4312192474","https://openalex.org/W4283697347"],"abstract_inverted_index":{"Mutational":[0],"effects":[1,46,87],"predictions":[2,190],"continue":[3],"to":[4,24,31,43,58,84,166,199],"improve":[5],"in":[6,107,162,171],"accuracy":[7],"as":[8],"advanced":[9],"artificial":[10],"intelligence":[11],"(AI)":[12],"algorithms":[13],"are":[14,26,88],"trained":[15],"on":[16,94,114,137,174],"exhaustive":[17],"experimental":[18],"data.":[19],"The":[20,130,183],"next":[21],"natural":[22],"questions":[23],"ask":[25],"if":[27,48],"it":[28],"is":[29],"possible":[30],"gain":[32],"insights":[33],"into":[34,188],"which":[35],"attribute":[36],"of":[37,73,110,117,132,154,193],"the":[38,44,56,67,78,85,92,108,115,118,122,133,138,145,151,155,163,168,172,189,202],"mutation":[39,149],"contributes":[40],"how":[41],"much":[42],"mutational":[45,59,86,101,134],"and":[47,81,112,128,176,191,195],"one":[49],"can":[50],"develop":[51],"universal":[52,158],"rules":[53],"for":[54,144],"mapping":[55],"descriptors":[57,80],"effects.":[60],"In":[61],"this":[62],"work,":[63],"we":[64],"mainly":[65],"address":[66],"former":[68],"aspect":[69],"using":[70],"a":[71],"framework":[72],"interpretable":[74],"AI.":[75],"Relations":[76],"between":[77],"physicochemical":[79],"their":[82],"contributions":[83,136],"extracted":[89,127],"by":[90],"analyzing":[91],"data":[93],"29,832":[95],"variants":[96],"from":[97,121],"eight":[98],"systematic":[99],"deep":[100],"scan":[102],"studies.":[103],"An":[104],"opposite":[105],"trend":[106],"dependence":[109,131,173],"fitness":[111],"solubility":[113],"distance":[116],"amino":[119,146],"acid":[120,147],"catalytic":[123],"sites":[124],"could":[125],"be":[126],"quantified.":[129],"effect":[135],"position-specific":[139],"scoring":[140],"matrix":[141],"(PSSM)":[142],"score":[143,153],"after":[148],"or":[150],"BLOSUM":[152],"substitution":[156],"showed":[157],"trends.":[159],"Our":[160],"attempts":[161],"present":[164],"work":[165,184],"explain":[167],"quantitative":[169],"differences":[170],"conservation":[175],"SASA":[177],"across":[178],"proteins":[179],"were":[180],"not":[181],"successful.":[182],"nevertheless":[185],"brings":[186],"transparency":[187],"development":[192],"rules,":[194],"will":[196],"hopefully":[197],"lead":[198],"empirically":[200],"uncovering":[201],"universalities":[203],"among":[204],"these":[205],"rules.":[206]},"counts_by_year":[{"year":2021,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}