{"id":"https://openalex.org/W1768179097","doi":"https://doi.org/10.1371/journal.pcbi.1004385","title":"Ten Simple Rules for a Computational Biologist\u2019s Laboratory Notebook","display_name":"Ten Simple Rules for a Computational Biologist\u2019s Laboratory Notebook","publication_year":2015,"publication_date":"2015-09-10","ids":{"openalex":"https://openalex.org/W1768179097","doi":"https://doi.org/10.1371/journal.pcbi.1004385","mag":"1768179097","pmid":"https://pubmed.ncbi.nlm.nih.gov/26356732"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1004385","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1004385","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1004385&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"editorial","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1004385&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5037782401","display_name":"Santiago Schnell","orcid":"https://orcid.org/0000-0002-9477-3914"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]},{"id":"https://openalex.org/I4210111179","display_name":"Michigan United","ror":"https://ror.org/0291ys696","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210111179"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Santiago Schnell","raw_affiliation_strings":["Department of Molecular and Integrative Physiology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America; Department of Computational Medicine and Bioinformatics, University of Michigan Medical School, Ann Arbor, Michigan, United States of America; Brehm Center for Diabetes Research, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","Department of Molecular and Integrative Physiology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","Brehm Center for Diabetes Research, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","Department of Computational Medicine and Bioinformatics, University of Michigan Medical School, Ann Arbor, Michigan, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular and Integrative Physiology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America; Department of Computational Medicine and Bioinformatics, University of Michigan Medical School, Ann Arbor, Michigan, United States of America; Brehm Center for Diabetes Research, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","institution_ids":[]},{"raw_affiliation_string":"Department of Molecular and Integrative Physiology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210111179"]},{"raw_affiliation_string":"Brehm Center for Diabetes Research, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210111179"]},{"raw_affiliation_string":"Department of Computational Medicine and Bioinformatics, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210111179"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5037782401"],"corresponding_institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210111179"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":15.7565,"has_fulltext":true,"cited_by_count":69,"citation_normalized_percentile":{"value":0.98599018,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"11","issue":"9","first_page":"e1004385","last_page":"e1004385"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9998000264167786,"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"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9998000264167786,"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"}},{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9979000091552734,"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/T11937","display_name":"Research Data Management Practices","score":0.9904000163078308,"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":0.622075080871582},{"id":"https://openalex.org/keywords/simple","display_name":"Simple (philosophy)","score":0.5703895092010498},{"id":"https://openalex.org/keywords/computational-model","display_name":"Computational model","score":0.5070719718933105},{"id":"https://openalex.org/keywords/face","display_name":"Face (sociological concept)","score":0.4744889736175537},{"id":"https://openalex.org/keywords/biologist","display_name":"Biologist","score":0.46642643213272095},{"id":"https://openalex.org/keywords/experimental-biology","display_name":"Experimental biology","score":0.439347505569458},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.43467992544174194},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.22199568152427673},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15949642658233643},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.15064719319343567},{"id":"https://openalex.org/keywords/sociology","display_name":"Sociology","score":0.09348830580711365}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.622075080871582},{"id":"https://openalex.org/C2780586882","wikidata":"https://www.wikidata.org/wiki/Q7520643","display_name":"Simple (philosophy)","level":2,"score":0.5703895092010498},{"id":"https://openalex.org/C66024118","wikidata":"https://www.wikidata.org/wiki/Q1122506","display_name":"Computational model","level":2,"score":0.5070719718933105},{"id":"https://openalex.org/C2779304628","wikidata":"https://www.wikidata.org/wiki/Q3503480","display_name":"Face (sociological concept)","level":2,"score":0.4744889736175537},{"id":"https://openalex.org/C2778824453","wikidata":"https://www.wikidata.org/wiki/Q864503","display_name":"Biologist","level":2,"score":0.46642643213272095},{"id":"https://openalex.org/C2991708970","wikidata":"https://www.wikidata.org/wiki/Q55611285","display_name":"Experimental biology","level":2,"score":0.439347505569458},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.43467992544174194},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.22199568152427673},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15949642658233643},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.15064719319343567},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.09348830580711365},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C36289849","wikidata":"https://www.wikidata.org/wiki/Q34749","display_name":"Social science","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003625","descriptor_name":"Data Collection","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003625","descriptor_name":"Data Collection","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003625","descriptor_name":"Data Collection","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000331","qualifier_name":"legislation & jurisprudence","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000331","qualifier_name":"legislation & jurisprudence","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000331","qualifier_name":"legislation & jurisprudence","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000458","qualifier_name":"organization & administration","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000458","qualifier_name":"organization & administration","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000458","qualifier_name":"organization & administration","is_major_topic":true},{"descriptor_ui":"D019451","descriptor_name":"Information Management","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019451","descriptor_name":"Information Management","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019451","descriptor_name":"Information Management","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1371/journal.pcbi.1004385","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1004385","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1004385&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:26356732","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26356732","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:RePEc:plo:pcbi00:1004385","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004385","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"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":"article"},{"id":"pmh:oai:doaj.org/article:72e1b6a505fb4bcfaedcec85b48465c3","is_oa":false,"landing_page_url":"https://doaj.org/article/72e1b6a505fb4bcfaedcec85b48465c3","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 11, Iss 9, p e1004385 (2015)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4565690","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4565690","pdf_url":null,"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":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1004385","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1004385","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1004385&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G8367351466","display_name":null,"funder_award_id":"R25 DK088752","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"},{"id":"https://openalex.org/G8761364480","display_name":null,"funder_award_id":"DK088752","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"}],"funders":[{"id":"https://openalex.org/F4320309652","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291"},{"id":"https://openalex.org/F4320337357","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1768179097.pdf","grobid_xml":"https://content.openalex.org/works/W1768179097.grobid-xml"},"referenced_works_count":7,"referenced_works":["https://openalex.org/W278406845","https://openalex.org/W2008985174","https://openalex.org/W2019866696","https://openalex.org/W2036318837","https://openalex.org/W2092832978","https://openalex.org/W2266080824","https://openalex.org/W2318108838"],"related_works":["https://openalex.org/W3120267764","https://openalex.org/W4391297281","https://openalex.org/W4388726152","https://openalex.org/W2462770596","https://openalex.org/W4212863579","https://openalex.org/W1510503428","https://openalex.org/W1585007175","https://openalex.org/W2118855468","https://openalex.org/W2382521049","https://openalex.org/W2518279338"],"abstract_inverted_index":{"One":[0],"of":[1,10,81,96,98],"the":[2,8,41,78,99,110],"major":[3],"hurdles":[4],"I":[5,108],"face":[6],"as":[7,77,92,114],"head":[9],"a":[11,31,38,46,93,105,119],"computational":[12,25,42,123],"biology":[13,43],"laboratory":[14,32],"is":[15,49,62,68],"convincing":[16],"my":[17],"research":[18,83],"team\u2014particularly":[19],"those":[20],"pursuing":[21,127],"exclusively":[22,128],"mathematical":[23],"and":[24,56,72,84,101],"modeling\u2014that":[26],"they":[27],"need":[28],"to":[29,36],"keep":[30],"notebook.":[33],"There":[34],"seems":[35],"be":[37],"misconception":[39],"in":[40,122],"community":[44],"that":[45],"lab":[47,60,120],"notebook":[48,61,121],"only":[50],"useful":[51],"for":[52,86,117,125],"recording":[53],"experimental":[54],"protocols":[55],"their":[57],"results.":[58],"A":[59],"much":[63],"more":[64],"than":[65],"that.":[66],"It":[67,89],"an":[69],"organizational":[70],"tool":[71],"memory":[73],"aid,":[74],"which":[75],"serves":[76,91],"primary":[79],"record":[80,95],"scientific":[82],"activity":[85],"all":[87],"scientists.":[88],"also":[90],"legal":[94],"ownership":[97],"ideas":[100],"results":[102],"obtained":[103],"by":[104],"scientist.":[106],"Here,":[107],"present":[109],"best":[111],"practices":[112],"(summarized":[113],"ten":[115],"rules)":[116],"keeping":[118],"biology,":[124],"scientists":[126],"\u201cdry\u201d":[129],"research.":[130]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":6},{"year":2021,"cited_by_count":21},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":7},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":8}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}
