{"id":"https://openalex.org/W4362507415","doi":"https://doi.org/10.1186/s13321-023-00714-y","title":"LinChemIn: SynGraph\u2014a data model and a toolkit to analyze and compare synthetic routes","display_name":"LinChemIn: SynGraph\u2014a data model and a toolkit to analyze and compare synthetic routes","publication_year":2023,"publication_date":"2023-04-01","ids":{"openalex":"https://openalex.org/W4362507415","doi":"https://doi.org/10.1186/s13321-023-00714-y","pmid":"https://pubmed.ncbi.nlm.nih.gov/37005691"},"language":"en","primary_location":{"id":"doi:10.1186/s13321-023-00714-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-023-00714-y","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-023-00714-y","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/s13321-023-00714-y","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5024086561","display_name":"Marta Pasquini","orcid":"https://orcid.org/0000-0001-6761-7142"},"institutions":[{"id":"https://openalex.org/I89199228","display_name":"Syngenta (Switzerland)","ror":"https://ror.org/05fqg8t87","country_code":"CH","type":"company","lineage":["https://openalex.org/I89199228"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Marta Pasquini","raw_affiliation_strings":["Syngenta Crop Protection AG, Schaffhauserstrasse, 4332, Stein, AG, Switzerland. marta.pasquini@syngenta.com","Syngenta Crop Protection AG, Schaffhauserstrasse, 4332, Stein, AG, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Syngenta Crop Protection AG, Schaffhauserstrasse, 4332, Stein, AG, Switzerland. marta.pasquini@syngenta.com","institution_ids":["https://openalex.org/I89199228"]},{"raw_affiliation_string":"Syngenta Crop Protection AG, Schaffhauserstrasse, 4332, Stein, AG, Switzerland","institution_ids":["https://openalex.org/I89199228"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089589222","display_name":"Marco Stenta","orcid":null},"institutions":[{"id":"https://openalex.org/I89199228","display_name":"Syngenta (Switzerland)","ror":"https://ror.org/05fqg8t87","country_code":"CH","type":"company","lineage":["https://openalex.org/I89199228"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Marco Stenta","raw_affiliation_strings":["Syngenta Crop Protection AG, Schaffhauserstrasse, 4332, Stein, AG, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Syngenta Crop Protection AG, Schaffhauserstrasse, 4332, Stein, AG, Switzerland","institution_ids":["https://openalex.org/I89199228"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5024086561"],"corresponding_institution_ids":["https://openalex.org/I89199228"],"apc_list":{"value":1290,"currency":"GBP","value_usd":1582},"apc_paid":{"value":1290,"currency":"GBP","value_usd":1582},"fwci":1.0231,"has_fulltext":true,"cited_by_count":11,"citation_normalized_percentile":{"value":0.71739828,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":98},"biblio":{"volume":"15","issue":"1","first_page":"41","last_page":"41"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.6583999991416931,"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":0.6583999991416931,"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/T12292","display_name":"Graph Theory and Algorithms","score":0.07410000264644623,"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/T11986","display_name":"Scientific Computing and Data Management","score":0.03849999979138374,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.746950626373291},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4545556306838989},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4382559359073639}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.746950626373291},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4545556306838989},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4382559359073639}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1186/s13321-023-00714-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-023-00714-y","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-023-00714-y","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:37005691","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37005691","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:10067316","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10067316","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10067316/pdf/13321_2023_Article_714.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":"J Cheminform","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:3f8f033a384444598f8950d4b03e88b7","is_oa":true,"landing_page_url":"https://doaj.org/article/3f8f033a384444598f8950d4b03e88b7","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 15, Iss 1, Pp 1-17 (2023)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s13321-023-00714-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-023-00714-y","pdf_url":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-023-00714-y","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":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4362507415.pdf"},"referenced_works_count":60,"referenced_works":["https://openalex.org/W949268345","https://openalex.org/W1981939086","https://openalex.org/W1989277387","https://openalex.org/W2014361844","https://openalex.org/W2028509346","https://openalex.org/W2041548070","https://openalex.org/W2052882499","https://openalex.org/W2101582871","https://openalex.org/W2132022337","https://openalex.org/W2155464463","https://openalex.org/W2324964582","https://openalex.org/W2493109812","https://openalex.org/W2537040262","https://openalex.org/W2615214936","https://openalex.org/W2724493970","https://openalex.org/W2767801660","https://openalex.org/W2784330372","https://openalex.org/W2789913372","https://openalex.org/W2793792485","https://openalex.org/W2799620402","https://openalex.org/W2806880363","https://openalex.org/W2884895724","https://openalex.org/W2909063104","https://openalex.org/W2914837232","https://openalex.org/W2938072319","https://openalex.org/W2950160930","https://openalex.org/W2996042090","https://openalex.org/W3010145447","https://openalex.org/W3015464008","https://openalex.org/W3082712976","https://openalex.org/W3088142693","https://openalex.org/W3093689306","https://openalex.org/W3101155908","https://openalex.org/W3109834551","https://openalex.org/W3118349318","https://openalex.org/W3120686965","https://openalex.org/W3124917080","https://openalex.org/W3128928362","https://openalex.org/W3143418323","https://openalex.org/W3146384714","https://openalex.org/W3189809547","https://openalex.org/W3199995031","https://openalex.org/W3202979417","https://openalex.org/W3208259961","https://openalex.org/W3209726219","https://openalex.org/W4206063340","https://openalex.org/W4206366133","https://openalex.org/W4213314063","https://openalex.org/W4214591967","https://openalex.org/W4220747243","https://openalex.org/W4224434723","https://openalex.org/W4224435304","https://openalex.org/W4226050570","https://openalex.org/W4226145240","https://openalex.org/W4231254854","https://openalex.org/W4236758974","https://openalex.org/W4292805535","https://openalex.org/W4311366447","https://openalex.org/W4311481273","https://openalex.org/W4393754231"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1,185,200],"increasing":[2],"amount":[3],"of":[4,37,76,203,226,241,254,258],"chemical":[5],"reaction":[6,46,81,122],"data":[7,28,82,137,146,149],"makes":[8],"traditional":[9],"ways":[10,39],"to":[11,40,93,175,207],"navigate":[12],"its":[13],"corpus":[14],"less":[15],"effective,":[16],"while":[17],"the":[18,35,44,49,65,74,91,143,167,171,230,239,252],"demand":[19],"for":[20,128,244],"novel":[21],"approaches":[22],"and":[23,30,96,121,132,134,139,148,151,155,160,170,179,183,195,215,218,222,232,251],"instruments":[24],"is":[25,265],"rising.":[26],"Recent":[27],"science":[29],"machine":[31],"learning":[32],"techniques":[33],"support":[34,180],"development":[36,240],"new":[38,136],"extract":[41],"value":[42],"from":[43,73,212,229],"available":[45,267],"data.":[47],"On":[48],"one":[50],"side,":[51,67],"Computer-Aided":[52],"Synthesis":[53],"Planning":[54],"tools":[55,214],"can":[56,70],"predict":[57],"synthetic":[58,98,119,209,262],"routes":[59,69,99,120,210,245],"in":[60,79,85],"a":[61,86,111,247],"model-driven":[62],"approach;":[63],"on":[64,118,261],"other":[66],"experimental":[68],"be":[71],"extracted":[72],"Network":[75],"Organic":[77],"Chemistry,":[78],"which":[80],"are":[83,173],"linked":[84],"network.":[87],"In":[88],"this":[89],"context,":[90],"need":[92],"combine,":[94],"compare":[95],"analyze":[97,216],"generated":[100,211],"by":[101],"different":[102],"sources":[103],"arises":[104],"naturally.":[105],"RESULTS:":[106],"Here":[107],"we":[108],"present":[109],"LinChemIn,":[110],"python":[112],"toolkit":[113],"that":[114],"allows":[115,142,205],"chemoinformatics":[116,133],"operations":[117],"networks.":[123],"Wrapping":[124],"some":[125],"third-party":[126],"packages":[127],"handling":[129],"graph":[130],"arithmetic":[131],"implementing":[135],"models":[138,150],"functionalities,":[140],"LinChemIn":[141,204,264],"interconversion":[144],"between":[145],"formats":[147],"enables":[152],"route-level":[153],"analysis":[154],"operations,":[156],"including":[157],"route":[158],"comparison":[159],"descriptors":[161],"calculation.":[162],"Object-Oriented":[163],"Design":[164],"principles":[165],"inspire":[166],"software":[168,197],"architecture,":[169],"modules":[172],"structured":[174],"maximize":[176],"code":[177,181,186],"reusability":[178],"testing":[182],"refactoring.":[184],"structure":[187],"should":[188],"facilitate":[189],"external":[190],"contributions,":[191],"thus":[192],"encouraging":[193],"open":[194,221],"collaborative":[196],"development.":[198],"CONCLUSIONS:":[199],"current":[201],"version":[202],"users":[206],"combine":[208],"various":[213],"them,":[217],"constitutes":[219],"an":[220,255],"extensible":[223],"framework":[224],"capable":[225],"incorporating":[227],"contributions":[228],"community":[231],"fostering":[233],"scientific":[234],"discussion.":[235],"Our":[236],"roadmap":[237],"envisages":[238],"sophisticated":[242],"metrics":[243],"evaluation,":[246],"multi-parameter":[248],"scoring":[249],"system,":[250],"implementation":[253],"entire":[256],"\"ecosystem\"":[257],"functionalities":[259],"operating":[260],"routes.":[263],"freely":[266],"at":[268],"https://github.com/syngenta/linchemin.":[269]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":6}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
