{"id":"https://openalex.org/W4200474128","doi":"https://doi.org/10.1093/bioinformatics/btab843","title":"Benchmarking table recognition performance on biomedical literature on neurological disorders","display_name":"Benchmarking table recognition performance on biomedical literature on neurological disorders","publication_year":2021,"publication_date":"2021-12-18","ids":{"openalex":"https://openalex.org/W4200474128","doi":"https://doi.org/10.1093/bioinformatics/btab843","pmid":"https://pubmed.ncbi.nlm.nih.gov/34935870"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab843","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab843","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","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/A5026403748","display_name":"Tim Adams","orcid":"https://orcid.org/0000-0002-2823-0102"},"institutions":[{"id":"https://openalex.org/I4210098248","display_name":"Fraunhofer Institute for Algorithms and Scientific Computing","ror":"https://ror.org/00trw9c49","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210098248","https://openalex.org/I4923324"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Tim Adams","raw_affiliation_strings":["Fraunhofer Institute for Algorithms and Scientific Computing, Schloss Birlinghoven , Sankt Augustin 53757, Germany"],"raw_orcid":"https://orcid.org/0000-0002-2823-0102","affiliations":[{"raw_affiliation_string":"Fraunhofer Institute for Algorithms and Scientific Computing, Schloss Birlinghoven , Sankt Augustin 53757, Germany","institution_ids":["https://openalex.org/I4210098248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084431990","display_name":"Marcin Namys\u0142","orcid":"https://orcid.org/0000-0001-7066-1726"},"institutions":[{"id":"https://openalex.org/I135140700","display_name":"University of Bonn","ror":"https://ror.org/041nas322","country_code":"DE","type":"education","lineage":["https://openalex.org/I135140700"]},{"id":"https://openalex.org/I4210144576","display_name":"Fraunhofer Institute for Intelligent Analysis and Information Systems","ror":"https://ror.org/04nc32781","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210144576","https://openalex.org/I4923324"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Marcin Namysl","raw_affiliation_strings":["Autonomous Intelligent Systems, Computer Science Institute VI, University of Bonn , Bonn 53115, Germany","Fraunhofer Institute for Intelligent Analysis and Information Systems, Schloss Birlinghoven , Sankt Augustin 53757, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Autonomous Intelligent Systems, Computer Science Institute VI, University of Bonn , Bonn 53115, Germany","institution_ids":["https://openalex.org/I135140700"]},{"raw_affiliation_string":"Fraunhofer Institute for Intelligent Analysis and Information Systems, Schloss Birlinghoven , Sankt Augustin 53757, Germany","institution_ids":["https://openalex.org/I4210144576"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000031695","display_name":"Alpha Tom Kodamullil","orcid":"https://orcid.org/0000-0001-9896-3531"},"institutions":[{"id":"https://openalex.org/I4210098248","display_name":"Fraunhofer Institute for Algorithms and Scientific Computing","ror":"https://ror.org/00trw9c49","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210098248","https://openalex.org/I4923324"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Alpha Tom Kodamullil","raw_affiliation_strings":["Fraunhofer Institute for Algorithms and Scientific Computing, Schloss Birlinghoven , Sankt Augustin 53757, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Fraunhofer Institute for Algorithms and Scientific Computing, Schloss Birlinghoven , Sankt Augustin 53757, Germany","institution_ids":["https://openalex.org/I4210098248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027761977","display_name":"Sven Behnke","orcid":"https://orcid.org/0000-0002-5040-7525"},"institutions":[{"id":"https://openalex.org/I135140700","display_name":"University of Bonn","ror":"https://ror.org/041nas322","country_code":"DE","type":"education","lineage":["https://openalex.org/I135140700"]},{"id":"https://openalex.org/I4210144576","display_name":"Fraunhofer Institute for Intelligent Analysis and Information Systems","ror":"https://ror.org/04nc32781","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210144576","https://openalex.org/I4923324"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Sven Behnke","raw_affiliation_strings":["Autonomous Intelligent Systems, Computer Science Institute VI, University of Bonn , Bonn 53115, Germany","Fraunhofer Institute for Intelligent Analysis and Information Systems, Schloss Birlinghoven , Sankt Augustin 53757, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Autonomous Intelligent Systems, Computer Science Institute VI, University of Bonn , Bonn 53115, Germany","institution_ids":["https://openalex.org/I135140700"]},{"raw_affiliation_string":"Fraunhofer Institute for Intelligent Analysis and Information Systems, Schloss Birlinghoven , Sankt Augustin 53757, Germany","institution_ids":["https://openalex.org/I4210144576"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5016675379","display_name":"Marc Jacobs","orcid":"https://orcid.org/0000-0003-4153-3930"},"institutions":[{"id":"https://openalex.org/I4210098248","display_name":"Fraunhofer Institute for Algorithms and Scientific Computing","ror":"https://ror.org/00trw9c49","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210098248","https://openalex.org/I4923324"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Marc Jacobs","raw_affiliation_strings":["Fraunhofer Institute for Algorithms and Scientific Computing, Schloss Birlinghoven , Sankt Augustin 53757, Germany"],"raw_orcid":"https://orcid.org/0000-0003-4153-3930","affiliations":[{"raw_affiliation_string":"Fraunhofer Institute for Algorithms and Scientific Computing, Schloss Birlinghoven , Sankt Augustin 53757, Germany","institution_ids":["https://openalex.org/I4210098248"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5016675379","https://openalex.org/A5026403748"],"corresponding_institution_ids":["https://openalex.org/I4210098248"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.4849,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.66431569,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"38","issue":"6","first_page":"1624","last_page":"1630"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10601","display_name":"Handwritten Text Recognition Techniques","score":0.9772999882698059,"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":0.9772999882698059,"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":0.002899999963119626,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.001500000013038516,"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/benchmark","display_name":"Benchmark (surveying)","score":0.8993081450462341},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.8610281944274902},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8526649475097656},{"id":"https://openalex.org/keywords/table","display_name":"Table (database)","score":0.7983129024505615},{"id":"https://openalex.org/keywords/metric","display_name":"Metric (unit)","score":0.7070231437683105},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.5823379755020142},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.560742974281311},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5428812503814697},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5296879410743713},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.4670858383178711},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4275178611278534},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3404800593852997},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.12030726671218872}],"concepts":[{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.8993081450462341},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.8610281944274902},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8526649475097656},{"id":"https://openalex.org/C45235069","wikidata":"https://www.wikidata.org/wiki/Q278425","display_name":"Table (database)","level":2,"score":0.7983129024505615},{"id":"https://openalex.org/C176217482","wikidata":"https://www.wikidata.org/wiki/Q860554","display_name":"Metric (unit)","level":2,"score":0.7070231437683105},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5823379755020142},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.560742974281311},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5428812503814697},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5296879410743713},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.4670858383178711},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4275178611278534},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3404800593852997},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.12030726671218872},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","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/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0},{"id":"https://openalex.org/C21547014","wikidata":"https://www.wikidata.org/wiki/Q1423657","display_name":"Operations management","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","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/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009422","descriptor_name":"Nervous System Diseases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009422","descriptor_name":"Nervous System Diseases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009422","descriptor_name":"Nervous System Diseases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btab843","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab843","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:34935870","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34935870","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:fraunhofer.de:N-645079","is_oa":false,"landing_page_url":"http://publica.fraunhofer.de/documents/N-645079.html","pdf_url":null,"source":{"id":"https://openalex.org/S4306400801","display_name":"Publikationsdatenbank der Fraunhofer-Gesellschaft (Fraunhofer-Gesellschaft)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4923324","host_organization_name":"Fraunhofer-Gesellschaft","host_organization_lineage":["https://openalex.org/I4923324"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Fraunhofer IAIS","raw_type":"article"},{"id":"pmh:oai:publica.fraunhofer.de:publica/271308","is_oa":false,"landing_page_url":"https://publica.fraunhofer.de/handle/publica/271308","pdf_url":null,"source":{"id":"https://openalex.org/S4306400318","display_name":"Fraunhofer-Publica (Fraunhofer-Gesellschaft)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4923324","host_organization_name":"Fraunhofer-Gesellschaft","host_organization_lineage":["https://openalex.org/I4923324"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"journal article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":19,"referenced_works":["https://openalex.org/W2074966879","https://openalex.org/W2128863362","https://openalex.org/W2140465264","https://openalex.org/W2302501749","https://openalex.org/W2327315803","https://openalex.org/W2656695974","https://openalex.org/W2889497954","https://openalex.org/W2904433122","https://openalex.org/W2950796078","https://openalex.org/W2968868378","https://openalex.org/W3003543339","https://openalex.org/W3032536818","https://openalex.org/W3049299998","https://openalex.org/W3107064625","https://openalex.org/W4210252045","https://openalex.org/W6760195326","https://openalex.org/W6763123660","https://openalex.org/W6766682019","https://openalex.org/W6807333410"],"related_works":["https://openalex.org/W4238897586","https://openalex.org/W435179959","https://openalex.org/W2619091065","https://openalex.org/W2059640416","https://openalex.org/W2803139007","https://openalex.org/W2088647418","https://openalex.org/W1482441085","https://openalex.org/W2966858528","https://openalex.org/W2151687600","https://openalex.org/W3081644756"],"abstract_inverted_index":{"MOTIVATION:":[0],"Table":[1],"recognition":[2,128],"systems":[3,29,103],"are":[4,20,44,56,178],"widely":[5],"used":[6,85],"to":[7,86,165],"extract":[8],"and":[9,50,88,109],"structure":[10],"quantitative":[11],"information":[12],"from":[13,23],"the":[14,41,115,125,131,162],"vast":[15],"amount":[16],"of":[17,127],"documents":[18],"that":[19,112,122,144],"increasingly":[21],"available":[22,179],"different":[24],"open":[25],"sources.":[26],"While":[27],"many":[28],"already":[30],"perform":[31],"well":[32,119,140,160],"on":[33,74,79,105],"tables":[34,39,55],"with":[35],"a":[36,67,75,136,147],"simple":[37],"layout,":[38],"in":[40,146],"biomedical":[42],"domain":[43],"often":[45],"much":[46],"more":[47],"complex.":[48],"Benchmark":[49],"training":[51],"data":[52,177],"for":[53,93],"such":[54],"however":[57],"very":[58],"limited.":[59],"RESULTS:":[60],"To":[61],"address":[62],"this":[63,94],"issue,":[64],"we":[65,134],"present":[66],"novel,":[68],"highly":[69],"curated":[70],"benchmark":[71,108,116,156],"dataset":[72,157],"based":[73,104],"hand-curated":[76],"literature":[77],"corpus":[78],"neurological":[80],"disorders,":[81],"which":[82],"can":[83,123,170],"be":[84,171],"tune":[87],"evaluate":[89,98],"table":[90,101],"extraction":[91,102],"applications":[92],"challenging":[95],"domain.":[96],"We":[97],"several":[99,142],"state-of-the-art":[100],"our":[106,166],"proposed":[107],"discuss":[110],"challenges":[111],"emerged":[113],"during":[114],"creation":[117],"as":[118,120,139,141,159,161],"factors":[121],"impact":[124],"performance":[126,149],"methods.":[129],"For":[130],"evaluation":[132,168],"procedure,":[133],"propose":[135],"new":[137],"metric":[138],"improvements":[143],"result":[145],"better":[148],"evaluation.":[150],"AVAILABILITY":[151],"AND":[152],"IMPLEMENTATION:":[153],"The":[154],"resulting":[155],"(https://zenodo.org/record/5549977)":[158],"source":[163],"code":[164],"novel":[167],"approach":[169],"openly":[172],"accessed.":[173],"SUPPLEMENTARY":[174],"INFORMATION:":[175],"Supplementary":[176],"at":[180],"Bioinformatics":[181],"online.":[182]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":4}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
