{"id":"https://openalex.org/W4406890398","doi":"https://doi.org/10.1371/journal.pcbi.1012756","title":"Ten simple rules to complete successfully a computational MSc thesis project","display_name":"Ten simple rules to complete successfully a computational MSc thesis project","publication_year":2025,"publication_date":"2025-01-28","ids":{"openalex":"https://openalex.org/W4406890398","doi":"https://doi.org/10.1371/journal.pcbi.1012756","pmid":"https://pubmed.ncbi.nlm.nih.gov/39874385"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1012756","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012756","pdf_url":null,"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":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1371/journal.pcbi.1012756","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5030625153","display_name":"Edoardo Saccenti","orcid":"https://orcid.org/0000-0001-8284-4829"},"institutions":[{"id":"https://openalex.org/I913481162","display_name":"Wageningen University & Research","ror":"https://ror.org/04qw24q55","country_code":"NL","type":"education","lineage":["https://openalex.org/I913481162"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"Edoardo Saccenti","raw_affiliation_strings":["Laboratory of Systems and Synthetic Biology, Wageningen University & Research, Wageningen, the Netherlands"],"raw_orcid":"https://orcid.org/0000-0001-8284-4829","affiliations":[{"raw_affiliation_string":"Laboratory of Systems and Synthetic Biology, Wageningen University & Research, Wageningen, the Netherlands","institution_ids":["https://openalex.org/I913481162"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5076495440","display_name":"Cristina Furlan","orcid":"https://orcid.org/0000-0003-1416-3647"},"institutions":[{"id":"https://openalex.org/I913481162","display_name":"Wageningen University & Research","ror":"https://ror.org/04qw24q55","country_code":"NL","type":"education","lineage":["https://openalex.org/I913481162"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"Cristina Furlan","raw_affiliation_strings":["Laboratory of Systems and Synthetic Biology, Wageningen University & Research, Wageningen, the Netherlands"],"raw_orcid":"https://orcid.org/0000-0003-1416-3647","affiliations":[{"raw_affiliation_string":"Laboratory of Systems and Synthetic Biology, Wageningen University & Research, Wageningen, the Netherlands","institution_ids":["https://openalex.org/I913481162"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5030625153","https://openalex.org/A5076495440"],"corresponding_institution_ids":["https://openalex.org/I913481162"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.0132639,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"21","issue":"1","first_page":"e1012756","last_page":"e1012756"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9980999827384949,"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":0.9980999827384949,"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/T11937","display_name":"Research Data Management Practices","score":0.9807000160217285,"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"}},{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9646999835968018,"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/simple","display_name":"Simple (philosophy)","score":0.7831271886825562},{"id":"https://openalex.org/keywords/computational-thinking","display_name":"Computational thinking","score":0.6941508054733276},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.673874020576477},{"id":"https://openalex.org/keywords/computational-model","display_name":"Computational model","score":0.5602697730064392},{"id":"https://openalex.org/keywords/work","display_name":"Work (physics)","score":0.482526034116745},{"id":"https://openalex.org/keywords/management-science","display_name":"Management science","score":0.4510768949985504},{"id":"https://openalex.org/keywords/computational-problem","display_name":"Computational problem","score":0.41119423508644104},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4040164053440094},{"id":"https://openalex.org/keywords/mathematics-education","display_name":"Mathematics education","score":0.3479135036468506},{"id":"https://openalex.org/keywords/operations-research","display_name":"Operations research","score":0.3201087713241577},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2879509925842285},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1327715814113617},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.11974555253982544},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.11604499816894531}],"concepts":[{"id":"https://openalex.org/C2780586882","wikidata":"https://www.wikidata.org/wiki/Q7520643","display_name":"Simple (philosophy)","level":2,"score":0.7831271886825562},{"id":"https://openalex.org/C2780368719","wikidata":"https://www.wikidata.org/wiki/Q5157342","display_name":"Computational thinking","level":2,"score":0.6941508054733276},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.673874020576477},{"id":"https://openalex.org/C66024118","wikidata":"https://www.wikidata.org/wiki/Q1122506","display_name":"Computational model","level":2,"score":0.5602697730064392},{"id":"https://openalex.org/C18762648","wikidata":"https://www.wikidata.org/wiki/Q42213","display_name":"Work (physics)","level":2,"score":0.482526034116745},{"id":"https://openalex.org/C539667460","wikidata":"https://www.wikidata.org/wiki/Q2414942","display_name":"Management science","level":1,"score":0.4510768949985504},{"id":"https://openalex.org/C19754495","wikidata":"https://www.wikidata.org/wiki/Q3435924","display_name":"Computational problem","level":2,"score":0.41119423508644104},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4040164053440094},{"id":"https://openalex.org/C145420912","wikidata":"https://www.wikidata.org/wiki/Q853077","display_name":"Mathematics education","level":1,"score":0.3479135036468506},{"id":"https://openalex.org/C42475967","wikidata":"https://www.wikidata.org/wiki/Q194292","display_name":"Operations research","level":1,"score":0.3201087713241577},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2879509925842285},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1327715814113617},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.11974555253982544},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.11604499816894531},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","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/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D004212","descriptor_name":"Academic Dissertations as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004212","descriptor_name":"Academic Dissertations as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004500","descriptor_name":"Education, Graduate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004500","descriptor_name":"Education, Graduate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004500","descriptor_name":"Education, Graduate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004500","descriptor_name":"Education, Graduate","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":"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":"D013334","descriptor_name":"Students","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013334","descriptor_name":"Students","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013334","descriptor_name":"Students","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013334","descriptor_name":"Students","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000193","qualifier_name":"education","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000193","qualifier_name":"education","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000193","qualifier_name":"education","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000193","qualifier_name":"education","is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1371/journal.pcbi.1012756","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012756","pdf_url":null,"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:39874385","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39874385","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:library.wur.nl:wurpubs/642655","is_oa":true,"landing_page_url":"https://research.wur.nl/en/publications/ten-simple-rules-to-complete-successfully-a-computational-msc-the","pdf_url":"https://edepot.wur.nl/688025","source":{"id":"https://openalex.org/S4210201231","display_name":"Socio-Environmental Systems Modeling","issn_l":"2663-3027","issn":["2663-3027"],"is_oa":true,"is_in_doaj":false,"is_core":true,"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":"ISSN: 1553-734X","raw_type":"Article/Letter to editor"},{"id":"pmh:oai:pubmedcentral.nih.gov:11774343","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11774343","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11774343/pdf/pcbi.1012756.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":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:RePEc:plo:pcbi00:1012756","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1012756","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:62c51baa1f2b4d71aca062261a2e0793","is_oa":true,"landing_page_url":"https://doaj.org/article/62c51baa1f2b4d71aca062261a2e0793","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 21, Iss 1, p e1012756 (2025)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1012756","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012756","pdf_url":null,"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/G5208108052","display_name":null,"funder_award_id":"456008002","funder_id":"https://openalex.org/F4320321007","funder_display_name":"ZonMw"}],"funders":[{"id":"https://openalex.org/F4320321007","display_name":"ZonMw","ror":"https://ror.org/01yaj9a77"},{"id":"https://openalex.org/F4320334952","display_name":"Wageningen University and Research","ror":"https://ror.org/04qw24q55"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":51,"referenced_works":["https://openalex.org/W80675329","https://openalex.org/W111427542","https://openalex.org/W1480698798","https://openalex.org/W1480875267","https://openalex.org/W1550330821","https://openalex.org/W1565384528","https://openalex.org/W1768179097","https://openalex.org/W1968993977","https://openalex.org/W2019257047","https://openalex.org/W2026532911","https://openalex.org/W2043837757","https://openalex.org/W2106031730","https://openalex.org/W2124485463","https://openalex.org/W2131898801","https://openalex.org/W2132852414","https://openalex.org/W2139235797","https://openalex.org/W2157698445","https://openalex.org/W2166107990","https://openalex.org/W2219309259","https://openalex.org/W2275236285","https://openalex.org/W2302501749","https://openalex.org/W2339297454","https://openalex.org/W2511534758","https://openalex.org/W2617500648","https://openalex.org/W2748017642","https://openalex.org/W2797623707","https://openalex.org/W2800761307","https://openalex.org/W2898791608","https://openalex.org/W2949245500","https://openalex.org/W2964148489","https://openalex.org/W3009320818","https://openalex.org/W3015712553","https://openalex.org/W3022340081","https://openalex.org/W3086641389","https://openalex.org/W3124129720","https://openalex.org/W3130181623","https://openalex.org/W3165129782","https://openalex.org/W3196223300","https://openalex.org/W3203824013","https://openalex.org/W3206744719","https://openalex.org/W3210701824","https://openalex.org/W4220815133","https://openalex.org/W4280644197","https://openalex.org/W4288033875","https://openalex.org/W4300690024","https://openalex.org/W4402266186","https://openalex.org/W4403063417","https://openalex.org/W6675936067","https://openalex.org/W6684508011","https://openalex.org/W6800511375","https://openalex.org/W6801819135"],"related_works":["https://openalex.org/W2805176976","https://openalex.org/W3194517161","https://openalex.org/W4293217220","https://openalex.org/W2769928932","https://openalex.org/W3170123299","https://openalex.org/W4238554950","https://openalex.org/W4388381214","https://openalex.org/W2907384944","https://openalex.org/W4392721337","https://openalex.org/W3205917186"],"abstract_inverted_index":{"The":[0],"thesis":[1],"project":[2,52],"is":[3],"an":[4,9],"essential":[5],"step":[6],"to":[7,38,47,92,106],"obtain":[8],"MSc":[10],"degree.":[11],"Within":[12],"STEM":[13],"and":[14,40,115],"Life":[15],"Sciences":[16],"disciplines,":[17],"computational":[18,50,75,94,119,141],"theses":[19],"have":[20],"specific":[21,72],"characteristics":[22],"that":[23,74,123],"differentiate":[24],"them":[25],"from":[26],"wet":[27],"laboratory":[28],"ones.":[29],"In":[30],"this":[31],"article,":[32],"we":[33,69],"present":[34],"Ten":[35],"simple":[36,126],"rules":[37,127],"direct":[39],"support":[41],"Master":[42,55,130],"students":[43,76,99,131],"who":[44],"are":[45],"about":[46],"start":[48],"a":[49,100,133],"research":[51],"for":[53,66,118,135],"their":[54,80,140],"thesis.":[56,142],"We":[57,96,121],"begin":[58],"by":[59,85],"recommending":[60],"defining":[61],"the":[62,67,98,136],"personal":[63],"learning":[64],"goals":[65],"project;":[68],"then":[70],"highlight":[71],"pitfalls":[73],"might":[77],"encounter":[78],"during":[79],"work,":[81],"such":[82],"as":[83],"procrastination":[84],"computation":[86],"or":[87],"wasting":[88],"time":[89],"while":[90],"attempting":[91],"reinvent":[93],"tools.":[95],"provide":[97,129],"series":[101],"of":[102,139],"suggestions":[103],"on":[104],"how":[105],"work":[107],"following":[108],"FAIR":[109],"principles,":[110],"learn":[111],"new":[112],"computing":[113],"languages,":[114],"think":[116],"ahead":[117],"challenges.":[120],"hope":[122],"these":[124],"10":[125],"will":[128],"with":[132],"framework":[134],"successful":[137],"completion":[138]},"counts_by_year":[],"updated_date":"2026-06-20T22:02:38.213706","created_date":"2025-10-10T00:00:00"}
