{"id":"https://openalex.org/W4400358811","doi":"https://doi.org/10.1186/s13321-024-00872-7","title":"Advancements in hand-drawn chemical structure recognition through an enhanced DECIMER architecture","display_name":"Advancements in hand-drawn chemical structure recognition through an enhanced DECIMER architecture","publication_year":2024,"publication_date":"2024-07-05","ids":{"openalex":"https://openalex.org/W4400358811","doi":"https://doi.org/10.1186/s13321-024-00872-7","pmid":"https://pubmed.ncbi.nlm.nih.gov/38970120"},"language":"en","primary_location":{"id":"doi:10.1186/s13321-024-00872-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-024-00872-7","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-024-00872-7","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-024-00872-7","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017832889","display_name":"Kohulan Rajan","orcid":"https://orcid.org/0000-0003-1066-7792"},"institutions":[{"id":"https://openalex.org/I76198965","display_name":"Friedrich Schiller University Jena","ror":"https://ror.org/05qpz1x62","country_code":"DE","type":"education","lineage":["https://openalex.org/I76198965"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Kohulan Rajan","raw_affiliation_strings":["Institute for Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany"],"affiliations":[{"raw_affiliation_string":"Institute for Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany","institution_ids":["https://openalex.org/I76198965"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5106237036","display_name":"Henning Otto Brinkhaus","orcid":null},"institutions":[{"id":"https://openalex.org/I76198965","display_name":"Friedrich Schiller University Jena","ror":"https://ror.org/05qpz1x62","country_code":"DE","type":"education","lineage":["https://openalex.org/I76198965"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Henning Otto Brinkhaus","raw_affiliation_strings":["Institute for Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany"],"affiliations":[{"raw_affiliation_string":"Institute for Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany","institution_ids":["https://openalex.org/I76198965"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5106237037","display_name":"Achim Zielesny","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Achim Zielesny","raw_affiliation_strings":["Institute for Bioinformatics and Chemoinformatics, Westphalian University of Applied Sciences, August-Schmidt-Ring 10, 45665, Recklinghausen, Germany"],"affiliations":[{"raw_affiliation_string":"Institute for Bioinformatics and Chemoinformatics, Westphalian University of Applied Sciences, August-Schmidt-Ring 10, 45665, Recklinghausen, Germany","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040194803","display_name":"Christoph Steinbeck","orcid":"https://orcid.org/0000-0001-6966-0814"},"institutions":[{"id":"https://openalex.org/I76198965","display_name":"Friedrich Schiller University Jena","ror":"https://ror.org/05qpz1x62","country_code":"DE","type":"education","lineage":["https://openalex.org/I76198965"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Christoph Steinbeck","raw_affiliation_strings":["Institute for Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany. christoph.steinbeck@uni-jena.de","Institute for Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany"],"affiliations":[{"raw_affiliation_string":"Institute for Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany. christoph.steinbeck@uni-jena.de","institution_ids":["https://openalex.org/I76198965"]},{"raw_affiliation_string":"Institute for Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany","institution_ids":["https://openalex.org/I76198965"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5017832889"],"corresponding_institution_ids":["https://openalex.org/I76198965"],"apc_list":{"value":1290,"currency":"GBP","value_usd":1582},"apc_paid":{"value":1290,"currency":"GBP","value_usd":1582},"fwci":1.0146,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.76675708,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"16","issue":"1","first_page":"78","last_page":"78"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10601","display_name":"Handwritten Text Recognition Techniques","score":0.9951000213623047,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10601","display_name":"Handwritten Text Recognition Techniques","score":0.9951000213623047,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10824","display_name":"Image Retrieval and Classification Techniques","score":0.9696999788284302,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12016","display_name":"Web Data Mining and Analysis","score":0.9214000105857849,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7938660383224487},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.6067858934402466},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.5274853110313416},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5197110176086426},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.4459196925163269}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7938660383224487},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.6067858934402466},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.5274853110313416},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5197110176086426},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4459196925163269}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1186/s13321-024-00872-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-024-00872-7","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-024-00872-7","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},{"id":"pmid:38970120","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38970120","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 cheminformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11227129","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11227129","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11227129/pdf/13321_2024_Article_872.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Cheminform","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:77c177aaf2b045dbaccca5fae3895814","is_oa":true,"landing_page_url":"https://doaj.org/article/77c177aaf2b045dbaccca5fae3895814","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":"Journal of Cheminformatics, Vol 16, Iss 1, Pp 1-11 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s13321-024-00872-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-024-00872-7","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-024-00872-7","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure","score":0.4399999976158142}],"awards":[{"id":"https://openalex.org/G4464340764","display_name":null,"funder_award_id":"239748522- SFB 1127","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"}],"funders":[{"id":"https://openalex.org/F4320309895","display_name":"Carl-Zeiss-Stiftung","ror":"https://ror.org/03ng4kg22"},{"id":"https://openalex.org/F4320313941","display_name":"Friedrich-Schiller-Universit\u00e4t Jena","ror":"https://ror.org/05qpz1x62"},{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4400358811.pdf"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W1966456689","https://openalex.org/W1975147762","https://openalex.org/W1976144034","https://openalex.org/W2055888446","https://openalex.org/W2112207373","https://openalex.org/W2142069714","https://openalex.org/W2148797284","https://openalex.org/W2286719027","https://openalex.org/W2523785361","https://openalex.org/W2900090807","https://openalex.org/W2962707697","https://openalex.org/W2963734039","https://openalex.org/W3003428515","https://openalex.org/W3007750971","https://openalex.org/W3092396754","https://openalex.org/W3097145107","https://openalex.org/W3097598035","https://openalex.org/W3103383152","https://openalex.org/W3138074128","https://openalex.org/W3159789740","https://openalex.org/W3203895579","https://openalex.org/W4206029367","https://openalex.org/W4210416489","https://openalex.org/W4224926211","https://openalex.org/W4253313247","https://openalex.org/W4281807419","https://openalex.org/W4282936206","https://openalex.org/W4283761122","https://openalex.org/W4289936378","https://openalex.org/W4293868891","https://openalex.org/W4295078934","https://openalex.org/W4321274994","https://openalex.org/W4353112191","https://openalex.org/W4386001223","https://openalex.org/W4390872067","https://openalex.org/W6948409566"],"related_works":["https://openalex.org/W2731899572","https://openalex.org/W4226493464","https://openalex.org/W3215138031","https://openalex.org/W4312417841","https://openalex.org/W3193565141","https://openalex.org/W3009238340","https://openalex.org/W3133861977","https://openalex.org/W4321369474","https://openalex.org/W4360585206","https://openalex.org/W4285208911"],"abstract_inverted_index":{"Accurate":[0],"recognition":[1,72,159,189,220],"of":[2,62,73,138,190],"hand-drawn":[3,31,74,88,115,139,191,218],"chemical":[4,11,75,124,140,192],"structures":[5,32,125,141],"is":[6,179],"crucial":[7],"for":[8,35,52,122,187,213],"digitising":[9],"hand-written":[10],"information":[12],"in":[13,30,199,202],"traditional":[14],"laboratory":[15],"notebooks":[16],"or":[17,24],"facilitating":[18],"stylus-based":[19],"structure":[20,219],"entry":[21],"on":[22],"tablets":[23],"smartphones.":[25],"However,":[26],"the":[27,71,97,144,181,188],"inherent":[28],"variability":[29],"poses":[33],"challenges":[34],"existing":[36],"Optical":[37],"Chemical":[38,53],"Structure":[39],"Recognition":[40,55],"(OCSR)":[41],"software.":[42],"To":[43],"address":[44],"this,":[45],"we":[46],"present":[47],"an":[48,80,231],"enhanced":[49,158,195],"Deep":[50],"lEarning":[51],"ImagE":[54],"(DECIMER)":[56],"architecture":[57,154],"that":[58,84,95,150],"leverages":[59],"a":[60,92,120,135,156,235],"combination":[61],"Convolutional":[63],"Neural":[64],"Networks":[65],"(CNNs)":[66],"and":[67,178,207,222],"Transformers":[68],"to":[69,142,162],"improve":[70],"structures.":[76,193],"The":[77,147,167,194,216],"model":[78,170,184,196,221],"incorporates":[79],"EfficientNetV2":[81],"CNN":[82],"encoder":[83],"extracts":[85],"features":[86,99],"from":[87],"images,":[89],"followed":[90],"by":[91,118],"Transformer":[93],"decoder":[94],"converts":[96],"extracted":[98],"into":[100],"Simplified":[101],"Molecular":[102],"Input":[103],"Line":[104],"Entry":[105],"System":[106],"(SMILES)":[107],"strings.":[108],"Our":[109],"models":[110],"were":[111],"trained":[112],"using":[113,134],"synthetic":[114],"images":[116],"generated":[117],"RanDepict,":[119],"tool":[121],"depicting":[123],"with":[126],"different":[127],"style":[128],"elements.":[129],"A":[130],"benchmark":[131],"was":[132],"performed":[133],"real-world":[136,214],"dataset":[137],"evaluate":[143],"model's":[145],"performance.":[146],"results":[148],"indicate":[149],"our":[151,174],"improved":[152],"DECIMER":[153,169,217],"exhibits":[155],"significantly":[157],"accuracy":[160],"compared":[161],"other":[163],"approaches.":[164],"SCIENTIFIC":[165],"CONTRIBUTION:":[166],"new":[168],"presented":[171],"here":[172],"refines":[173],"previous":[175],"research":[176],"efforts":[177],"currently":[180],"only":[182],"open-source":[183,232],"tailored":[185],"specifically":[186],"performs":[197],"better":[198],"handling":[200],"variations":[201],"handwriting":[203],"styles,":[204],"line":[205],"thicknesses,":[206],"background":[208],"noise,":[209],"making":[210],"it":[211],"suitable":[212],"applications.":[215],"its":[223],"source":[224],"code":[225],"have":[226],"been":[227],"made":[228],"available":[229],"as":[230],"package":[233],"under":[234],"permissive":[236],"license.":[237]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
