{"id":"https://openalex.org/W4392859119","doi":"https://doi.org/10.3389/fbinf.2024.1358550","title":"An interactive visualization tool for educational outreach in protein contact map overlap analysis","display_name":"An interactive visualization tool for educational outreach in protein contact map overlap analysis","publication_year":2024,"publication_date":"2024-03-15","ids":{"openalex":"https://openalex.org/W4392859119","doi":"https://doi.org/10.3389/fbinf.2024.1358550","pmid":"https://pubmed.ncbi.nlm.nih.gov/38562910"},"language":"en","primary_location":{"id":"doi:10.3389/fbinf.2024.1358550","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2024.1358550","pdf_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2024.1358550/pdf?isPublishedV2=False","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2024.1358550/pdf?isPublishedV2=False","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5112974331","display_name":"Kevan Baker","orcid":null},"institutions":[{"id":"https://openalex.org/I82497590","display_name":"Auburn University","ror":"https://ror.org/02v80fc35","country_code":"US","type":"education","lineage":["https://openalex.org/I82497590"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kevan Baker","raw_affiliation_strings":["Department of Computer Science and Software Engineering, Auburn University, Auburn, AL, United States"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Software Engineering, Auburn University, Auburn, AL, United States","institution_ids":["https://openalex.org/I82497590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111148056","display_name":"Nathaniel Hughes","orcid":null},"institutions":[{"id":"https://openalex.org/I902671590","display_name":"Auburn University at Montgomery","ror":"https://ror.org/05eynd241","country_code":"US","type":"education","lineage":["https://openalex.org/I902671590"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nathaniel Hughes","raw_affiliation_strings":["Department of Computer Science and Computer Information Systems, Auburn University at Montgomery, Montgomery, AL, United States"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Computer Information Systems, Auburn University at Montgomery, Montgomery, AL, United States","institution_ids":["https://openalex.org/I902671590"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101844843","display_name":"Sutanu Bhattacharya","orcid":"https://orcid.org/0000-0002-3780-5174"},"institutions":[{"id":"https://openalex.org/I902671590","display_name":"Auburn University at Montgomery","ror":"https://ror.org/05eynd241","country_code":"US","type":"education","lineage":["https://openalex.org/I902671590"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Sutanu Bhattacharya","raw_affiliation_strings":["Department of Computer Science and Computer Information Systems, Auburn University at Montgomery, Montgomery, AL, United States"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Computer Information Systems, Auburn University at Montgomery, Montgomery, AL, United States","institution_ids":["https://openalex.org/I902671590"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5101844843"],"corresponding_institution_ids":["https://openalex.org/I902671590"],"apc_list":{"value":1900,"currency":"USD","value_usd":1900},"apc_paid":{"value":1900,"currency":"USD","value_usd":1900},"fwci":0.8972,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.72017297,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"4","issue":null,"first_page":"1358550","last_page":"1358550"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9994000196456909,"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":0.9994000196456909,"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/T11162","display_name":"Enzyme Structure and Function","score":0.9873999953269958,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9732999801635742,"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/computer-science","display_name":"Computer science","score":0.742578387260437},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.6841807961463928},{"id":"https://openalex.org/keywords/graphical-user-interface","display_name":"Graphical user interface","score":0.6190287470817566},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.6042089462280273},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.5801267623901367},{"id":"https://openalex.org/keywords/outreach","display_name":"Outreach","score":0.5782167911529541},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.5428140759468079},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.515182614326477},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.4834040701389313},{"id":"https://openalex.org/keywords/user-interface","display_name":"User interface","score":0.4216960072517395},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.327653169631958},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3250115215778351},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3117435574531555},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.12133714556694031}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.742578387260437},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.6841807961463928},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.6190287470817566},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.6042089462280273},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5801267623901367},{"id":"https://openalex.org/C2781400479","wikidata":"https://www.wikidata.org/wiki/Q11640","display_name":"Outreach","level":2,"score":0.5782167911529541},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.5428140759468079},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.515182614326477},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.4834040701389313},{"id":"https://openalex.org/C89505385","wikidata":"https://www.wikidata.org/wiki/Q47146","display_name":"User interface","level":2,"score":0.4216960072517395},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.327653169631958},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3250115215778351},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3117435574531555},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.12133714556694031},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"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/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","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/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.3389/fbinf.2024.1358550","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2024.1358550","pdf_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2024.1358550/pdf?isPublishedV2=False","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38562910","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38562910","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":"Frontiers in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10982686","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10982686","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10982686/pdf/fbinf-04-1358550.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Front Bioinform","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:40fb37fd9387413f828175f653d771cb","is_oa":true,"landing_page_url":"https://doaj.org/article/40fb37fd9387413f828175f653d771cb","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Frontiers in Bioinformatics, Vol 4 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.3389/fbinf.2024.1358550","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2024.1358550","pdf_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2024.1358550/pdf?isPublishedV2=False","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.6700000166893005}],"awards":[{"id":"https://openalex.org/G5775178389","display_name":null,"funder_award_id":"start-up grant","funder_id":"https://openalex.org/F4320309904","funder_display_name":"Auburn University"},{"id":"https://openalex.org/G5986514309","display_name":null,"funder_award_id":"start-up","funder_id":"https://openalex.org/F4320309904","funder_display_name":"Auburn University"}],"funders":[{"id":"https://openalex.org/F4320309904","display_name":"Auburn University","ror":"https://ror.org/02v80fc35"},{"id":"https://openalex.org/F4320314043","display_name":"Auburn University at Montgomery","ror":"https://ror.org/05eynd241"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4392859119.pdf"},"referenced_works_count":44,"referenced_works":["https://openalex.org/W1985445940","https://openalex.org/W1987134040","https://openalex.org/W2037312364","https://openalex.org/W2087064593","https://openalex.org/W2097471670","https://openalex.org/W2102245393","https://openalex.org/W2115540209","https://openalex.org/W2125890008","https://openalex.org/W2130479394","https://openalex.org/W2132629607","https://openalex.org/W2136799255","https://openalex.org/W2146084306","https://openalex.org/W2146567033","https://openalex.org/W2147145103","https://openalex.org/W2161538187","https://openalex.org/W2166701319","https://openalex.org/W2201713963","https://openalex.org/W2574496196","https://openalex.org/W2605650084","https://openalex.org/W2613081940","https://openalex.org/W2920908742","https://openalex.org/W2951639995","https://openalex.org/W2962831078","https://openalex.org/W2971003495","https://openalex.org/W2972577708","https://openalex.org/W2978928757","https://openalex.org/W2980272550","https://openalex.org/W2980805969","https://openalex.org/W2997234557","https://openalex.org/W3008905076","https://openalex.org/W3008923112","https://openalex.org/W3088630378","https://openalex.org/W3114047206","https://openalex.org/W3132448805","https://openalex.org/W3162614523","https://openalex.org/W3177828909","https://openalex.org/W3184365798","https://openalex.org/W3196998750","https://openalex.org/W3202243296","https://openalex.org/W4244821183","https://openalex.org/W4281790889","https://openalex.org/W4360762427","https://openalex.org/W6687500683","https://openalex.org/W6798693837"],"related_works":["https://openalex.org/W3180179400","https://openalex.org/W2118366689","https://openalex.org/W2154998455","https://openalex.org/W2116888309","https://openalex.org/W2477652530","https://openalex.org/W2039055059","https://openalex.org/W2381088774","https://openalex.org/W2281900275","https://openalex.org/W2183494409","https://openalex.org/W963721989"],"abstract_inverted_index":{"Recent":[0],"advancements":[1],"in":[2,23,29,86,100,135],"contact":[3,52,120,146],"map-based":[4],"protein":[5],"three-dimensional":[6],"(3D)":[7],"structure":[8],"prediction":[9],"have":[10],"been":[11],"driven":[12],"by":[13],"the":[14,21,92,105,118,167],"evolution":[15],"of":[16,111,137,145],"deep":[17],"learning":[18],"algorithms.":[19],"However,":[20],"gap":[22],"accessible":[24,165],"software":[25],"tools":[26,63],"for":[27,48,57,170,179,181],"novices":[28],"this":[30],"domain":[31],"remains":[32],"a":[33,40],"significant":[34],"challenge.":[35],"This":[36],"study":[37],"introduces":[38],"GoFold,":[39],"novel,":[41],"standalone":[42],"graphical":[43],"user":[44],"interface":[45],"(GUI)":[46],"designed":[47],"beginners":[49],"to":[50,67,89,97,166],"perform":[51],"map":[53,121],"overlap":[54,122],"(CMO)":[55],"problems":[56],"better":[58],"template":[59],"selection.":[60],"Unlike":[61],"existing":[62],"that":[64],"cater":[65],"more":[66],"research":[68],"needs":[69],"or":[70],"assume":[71],"foundational":[72],"knowledge,":[73],"GoFold":[74,112,131,152],"offers":[75],"an":[76],"intuitive,":[77],"user-friendly":[78],"platform":[79],"with":[80],"comprehensive":[81],"tutorials.":[82],"It":[83],"stands":[84],"out":[85],"its":[87],"ability":[88],"visually":[90],"represent":[91],"CMO":[93,106],"problem,":[94],"allowing":[95],"users":[96],"input":[98],"proteins":[99],"various":[101],"formats":[102],"and":[103,129,139,148,184],"explore":[104],"problem.":[107],"The":[108,174],"educational":[109],"value":[110],"is":[113,176],"demonstrated":[114],"through":[115],"benchmarking":[116],"against":[117],"state-of-the-art":[119],"method,":[123],"map_align,":[124],"using":[125],"two":[126],"datasets:":[127],"PSICOV":[128],"CAMEO.":[130],"exhibits":[132],"superior":[133],"performance":[134],"terms":[136],"TM-score":[138],"Z-score":[140],"metrics":[141],"across":[142],"diverse":[143],"qualities":[144],"maps":[147],"target":[149],"difficulties.":[150],"Notably,":[151],"runs":[153],"efficiently":[154],"on":[155],"personal":[156],"computers":[157],"without":[158],"any":[159],"third-party":[160],"dependencies,":[161],"thereby":[162],"making":[163],"it":[164],"general":[168],"public":[169],"promoting":[171],"citizen":[172],"science.":[173],"tool":[175],"freely":[177],"available":[178],"download":[180],"macOS,":[182],"Linux,":[183],"Windows.":[185]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
