{"id":"https://openalex.org/W1690771817","doi":"https://doi.org/10.1007/3-540-44863-2_6","title":"ProtoMcol: A Molecular Dynamics Research Framework for Algorithmic Development","display_name":"ProtoMcol: A Molecular Dynamics Research Framework for Algorithmic Development","publication_year":2003,"publication_date":"2003-01-01","ids":{"openalex":"https://openalex.org/W1690771817","doi":"https://doi.org/10.1007/3-540-44863-2_6","mag":"1690771817"},"language":"en","primary_location":{"id":"doi:10.1007/3-540-44863-2_6","is_oa":true,"landing_page_url":"https://doi.org/10.1007/3-540-44863-2_6","pdf_url":"https://link.springer.com/content/pdf/10.1007%2F3-540-44863-2_6.pdf","source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://link.springer.com/content/pdf/10.1007%2F3-540-44863-2_6.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5022556908","display_name":"Thierry Matthey","orcid":null},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["NO"],"is_corresponding":true,"raw_author_name":"T. Matthey","raw_affiliation_strings":["Department of Informatics, University of Bergen, 5020, Bergen, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Informatics, University of Bergen, 5020, Bergen, Norway","institution_ids":["https://openalex.org/I4432739"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076529591","display_name":"Alice Ko","orcid":null},"institutions":[{"id":"https://openalex.org/I107639228","display_name":"University of Notre Dame","ror":"https://ror.org/00mkhxb43","country_code":"US","type":"education","lineage":["https://openalex.org/I107639228"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"A. Ko","raw_affiliation_strings":["Department of Computer Science and Engineering, University of Notre Dame, Notre Dame, IN, USA, 46556-0309"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, University of Notre Dame, Notre Dame, IN, USA, 46556-0309","institution_ids":["https://openalex.org/I107639228"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5039906501","display_name":"Jes\u00fas A. Izaguirre","orcid":"https://orcid.org/0000-0002-4687-4884"},"institutions":[{"id":"https://openalex.org/I107639228","display_name":"University of Notre Dame","ror":"https://ror.org/00mkhxb43","country_code":"US","type":"education","lineage":["https://openalex.org/I107639228"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"J. A. Izaguirre","raw_affiliation_strings":["Department of Computer Science and Engineering, University of Notre Dame, Notre Dame, IN, USA, 46556-0309"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, University of Notre Dame, Notre Dame, IN, USA, 46556-0309","institution_ids":["https://openalex.org/I107639228"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5022556908","https://openalex.org/A5039906501"],"corresponding_institution_ids":["https://openalex.org/I107639228","https://openalex.org/I4432739"],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":null,"fwci":0.6974,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.66243194,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"50","last_page":"59"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10054","display_name":"Parallel Computing and Optimization Techniques","score":0.9932000041007996,"subfield":{"id":"https://openalex.org/subfields/1708","display_name":"Hardware and Architecture"},"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/T10054","display_name":"Parallel Computing and Optimization Techniques","score":0.9932000041007996,"subfield":{"id":"https://openalex.org/subfields/1708","display_name":"Hardware and Architecture"},"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/T13126","display_name":"Scientific Research and Discoveries","score":0.9886999726295471,"subfield":{"id":"https://openalex.org/subfields/3109","display_name":"Statistical and Nonlinear Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11181","display_name":"Advanced Data Storage Technologies","score":0.9803000092506409,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"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":0.8578589558601379},{"id":"https://openalex.org/keywords/grid","display_name":"Grid","score":0.619337260723114},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.5617891550064087},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.5256989002227783},{"id":"https://openalex.org/keywords/flexibility","display_name":"Flexibility (engineering)","score":0.5141294598579407},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.47690677642822266},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4638398289680481},{"id":"https://openalex.org/keywords/object-oriented-programming","display_name":"Object-oriented programming","score":0.4346143305301666},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.3968912959098816},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3308722674846649},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.13866209983825684}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8578589558601379},{"id":"https://openalex.org/C187691185","wikidata":"https://www.wikidata.org/wiki/Q2020720","display_name":"Grid","level":2,"score":0.619337260723114},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.5617891550064087},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.5256989002227783},{"id":"https://openalex.org/C2780598303","wikidata":"https://www.wikidata.org/wiki/Q65921492","display_name":"Flexibility (engineering)","level":2,"score":0.5141294598579407},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.47690677642822266},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4638398289680481},{"id":"https://openalex.org/C73752529","wikidata":"https://www.wikidata.org/wiki/Q79872","display_name":"Object-oriented programming","level":2,"score":0.4346143305301666},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.3968912959098816},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3308722674846649},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.13866209983825684},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","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/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1007/3-540-44863-2_6","is_oa":true,"landing_page_url":"https://doi.org/10.1007/3-540-44863-2_6","pdf_url":"https://link.springer.com/content/pdf/10.1007%2F3-540-44863-2_6.pdf","source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"}],"best_oa_location":{"id":"doi:10.1007/3-540-44863-2_6","is_oa":true,"landing_page_url":"https://doi.org/10.1007/3-540-44863-2_6","pdf_url":"https://link.springer.com/content/pdf/10.1007%2F3-540-44863-2_6.pdf","source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1395278945","display_name":"BIOCOMPLEXITY--Multiscale Simulation of Avian Limb Development","funder_award_id":"0083653","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G2739825259","display_name":"CAREER: Scalable Mathematical and Computational Models for Biomolecular Modeling","funder_award_id":"0135195","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6671297155","display_name":null,"funder_award_id":"CAREER","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320323299","display_name":"Norges Forskningsr\u00e5d","ror":"https://ror.org/00epmv149"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1690771817.pdf","grobid_xml":"https://content.openalex.org/works/W1690771817.grobid-xml"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W76658419","https://openalex.org/W89431391","https://openalex.org/W567316789","https://openalex.org/W1492678924","https://openalex.org/W1567903304","https://openalex.org/W1649645444","https://openalex.org/W1843268734","https://openalex.org/W1971231934","https://openalex.org/W1979573134","https://openalex.org/W1988883989","https://openalex.org/W1991939674","https://openalex.org/W2001676859","https://openalex.org/W2011601475","https://openalex.org/W2035687084","https://openalex.org/W2043666236","https://openalex.org/W2093988454","https://openalex.org/W2103815459","https://openalex.org/W2113913163"],"related_works":["https://openalex.org/W4236696095","https://openalex.org/W3143779693","https://openalex.org/W4309223525","https://openalex.org/W1501473830","https://openalex.org/W1691051400","https://openalex.org/W104982047","https://openalex.org/W2074513997","https://openalex.org/W2387742153","https://openalex.org/W2554026873","https://openalex.org/W2055522053"],"abstract_inverted_index":null,"counts_by_year":[{"year":2022,"cited_by_count":1}],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2025-10-10T00:00:00"}
