Managing Chaos: Bridging the cultural divide between engineers and scientists working within the life sciences
Within the rather chaotic atmosphere of scientific research the adoption of a software process, and the structured development of software, can be out of place. It is important to realize that the advancement of science is paramount, and so a balance must always be drawn between the cost and the ben...
Saved in:
| Published in: | Computing in science & engineering p. 1 |
|---|---|
| Main Authors: | , |
| Format: | Journal Article |
| Language: | English |
| Published: |
IEEE
2019
|
| Subjects: | |
| ISSN: | 1521-9615, 1558-366X |
| Online Access: | Get full text |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| Abstract | Within the rather chaotic atmosphere of scientific research the adoption of a software process, and the structured development of software, can be out of place. It is important to realize that the advancement of science is paramount, and so a balance must always be drawn between the cost and the benefit of the introduction of process into a research environment. This necessity presents a unique set of challenges to software development within the life sciences. These unique challenges are due to the cultural disconnect between life science research and software engineering. This paper outlines these challenges, and also discusses the software process used by the Institute for Systems Biology (ISB) to address them. |
|---|---|
| AbstractList | Within the rather chaotic atmosphere of scientific research the adoption of a software process, and the structured development of software, can be out of place. It is important to realize that the advancement of science is paramount, and so a balance must always be drawn between the cost and the benefit of the introduction of process into a research environment. This necessity presents a unique set of challenges to software development within the life sciences. These unique challenges are due to the cultural disconnect between life science research and software engineering. This paper outlines these challenges, and also discusses the software process used by the Institute for Systems Biology (ISB) to address them. |
| Author | Killcoyne, Sarah Boyle, John |
| Author_xml | – sequence: 1 givenname: Sarah surname: Killcoyne fullname: Killcoyne, Sarah organization: Institute for Systems Biology, Seattle – sequence: 2 givenname: John surname: Boyle fullname: Boyle, John organization: Institute for Systems Biology, Seattle |
| BookMark | eNp1kDtPwzAYRS1UJNrCyMTiP5BiO7ETs0HES2rFAEhskWt_bg3BQbZLxb8naREDEsv3kM69w5mgke88IHRKyYxSIs8X9eP1jBEiZ5TzAzTuZ5XlQryMhpvRTArKj9AkxldCSFFJPkZ-obxaOb_C9Vp18QJfBWd2f1oD1ps2bYJqsXGfzgBeQtoCeAy-RwBCxMobHLUDn1xMEW-78DaEty6tnd91tM7CHtEQj9GhVW2Ek589Rc8310_1XTZ_uL2vL-eZpoSJrLJSCEVLYQnjYPJSE8MKWVJZFJKykumiyg1fGtAVt8xaRUAQwizRgoGw-RTl-14duhgD2Ea7pJLrfArKtQ0lzaCsGZQ1g7Kml9Wnsj-pj-DeVfj6lz_b8w4AflnOclZWIv8G0Rp5qA |
| CODEN | CSENFA |
| CitedBy_id | crossref_primary_10_1134_S0361768819050062 |
| Cites_doi | 10.1145/1083231.1083240 10.1186/1471-2105-9-295 10.1177/030631289019003001 10.1126/science.1141319 10.1002/pmic.200800275 10.1093/bioinformatics/bti355 10.1109/SECSE.2009.5069155 10.1145/192844.193021 10.1109/VLHCC.2005.34 10.1109/MS.2007.155 10.1186/1471-2105-10-79 10.1511/2006.1.5 10.1186/1756-0381-1-12 10.1007/s10664-005-3865-y |
| ContentType | Journal Article |
| DBID | 97E RIA RIE AAYXX CITATION |
| DOI | 10.1109/MCSE.2009.155 |
| DatabaseName | IEEE Xplore (IEEE) IEEE All-Society Periodicals Package (ASPP) 1998–Present IEEE Electronic Library (IEL) CrossRef |
| DatabaseTitle | CrossRef |
| DatabaseTitleList | |
| Database_xml | – sequence: 1 dbid: RIE name: IEEE Electronic Library (IEL) url: https://ieeexplore.ieee.org/ sourceTypes: Publisher |
| DeliveryMethod | fulltext_linktorsrc |
| Discipline | Applied Sciences Sciences (General) |
| EISSN | 1558-366X |
| EndPage | 1 |
| ExternalDocumentID | 10_1109_MCSE_2009_155 5232786 |
| Genre | orig-research |
| GroupedDBID | -~X .DC 0R~ 29F 4.4 5GY 6IK 6J9 97E AAJGR AAWTH ABQJQ ABVLG ACGFO ACGFS ACIWK ADCTM AENEX AETIX AGKCL AGQYO AGSQL AHBIQ AHSDT AKQYR ALLEH ALMA_UNASSIGNED_HOLDINGS ATWAV AZLTO BEFXN BFFAM BGNUA BKEBE BPEOZ CS3 D0L DU5 EBS EJD F5P GX1 HZ~ IEDLZ IFIPE IPLJI JAVBF LAI M43 MVM O9- OCL P2P PQQKQ PZZ RIA RIE RNI ROL RZB TN5 TWZ WH7 ~02 5VS AASAJ AAYXX AI. AIBXA AKJIK CITATION H~9 IFJZH VH1 |
| ID | FETCH-LOGICAL-c1026-8f966a176f025ed37c0d2497194491272c483d5bdec85f2ffa0e6002f0c62e6f3 |
| IEDL.DBID | RIE |
| ISSN | 1521-9615 |
| IngestDate | Sat Nov 29 01:49:20 EST 2025 Tue Nov 18 21:18:41 EST 2025 Tue Nov 25 03:10:53 EST 2025 |
| IsPeerReviewed | true |
| IsScholarly | true |
| Language | English |
| License | https://ieeexplore.ieee.org/Xplorehelp/downloads/license-information/IEEE.html |
| LinkModel | DirectLink |
| MergedId | FETCHMERGED-LOGICAL-c1026-8f966a176f025ed37c0d2497194491272c483d5bdec85f2ffa0e6002f0c62e6f3 |
| PageCount | 1 |
| ParticipantIDs | crossref_citationtrail_10_1109_MCSE_2009_155 ieee_primary_5232786 crossref_primary_10_1109_MCSE_2009_155 |
| PublicationCentury | 2000 |
| PublicationDate | 2019-00-00 |
| PublicationDateYYYYMMDD | 2019-01-01 |
| PublicationDate_xml | – year: 2019 text: 2019-00-00 |
| PublicationDecade | 2010 |
| PublicationTitle | Computing in science & engineering |
| PublicationTitleAbbrev | CISE-M |
| PublicationYear | 2019 |
| Publisher | IEEE |
| Publisher_xml | – name: IEEE |
| References | ref12 ref14 beck (ref16) 0 ref11 ref10 (ref15) 2004; 306 (ref13) 0 ref2 ref1 ref17 ref18 ref8 ref7 ref9 ref4 ref3 segal (ref6) 2004 ref5 |
| References_xml | – ident: ref7 doi: 10.1145/1083231.1083240 – ident: ref17 doi: 10.1186/1471-2105-9-295 – ident: ref18 doi: 10.1177/030631289019003001 – ident: ref9 doi: 10.1126/science.1141319 – ident: ref10 doi: 10.1002/pmic.200800275 – ident: ref12 doi: 10.1093/bioinformatics/bti355 – year: 0 ident: ref13 publication-title: Gene Ontology Tool – ident: ref2 doi: 10.1109/SECSE.2009.5069155 – ident: ref8 doi: 10.1145/192844.193021 – ident: ref1 doi: 10.1109/VLHCC.2005.34 – ident: ref5 doi: 10.1109/MS.2007.155 – year: 0 ident: ref16 publication-title: Manifesto for Agile Software Development – ident: ref11 doi: 10.1186/1471-2105-10-79 – volume: 306 start-page: 636 year: 2004 ident: ref15 article-title: The ENCODE Project Consortium, The ENCODE (ENCyclopedia Of DNA Elements) publication-title: Scilab Project – ident: ref4 doi: 10.1511/2006.1.5 – ident: ref14 doi: 10.1186/1756-0381-1-12 – year: 2004 ident: ref6 publication-title: Professional End User Developers and Software Development Knowledge – ident: ref3 doi: 10.1007/s10664-005-3865-y |
| SSID | ssj0004895 |
| Score | 2.168107 |
| Snippet | Within the rather chaotic atmosphere of scientific research the adoption of a software process, and the structured development of software, can be out of... |
| SourceID | crossref ieee |
| SourceType | Enrichment Source Index Database Publisher |
| StartPage | 1 |
| SubjectTerms | C.0.e System architectures C.1.2.g Parallel processors Chaos Cultural differences D.0 General E.1.d Graphs and networks Engineering management F.2.2.b Computations on discrete structures F.2.2.c Geometrical problems and computations G.1.0.g Parallel algorithms G.2.2.a Graph algorithms G.2.2.d Network problems Industrial training Informatics integration and modeling Isolation technology Life sciences research Programming Software design Software development process Software standards Standards development Systems biology |
| Title | Managing Chaos: Bridging the cultural divide between engineers and scientists working within the life sciences |
| URI | https://ieeexplore.ieee.org/document/5232786 |
| hasFullText | 1 |
| inHoldings | 1 |
| isFullTextHit | |
| isPrint | |
| journalDatabaseRights | – providerCode: PRVIEE databaseName: IEEE Electronic Library (IEL) customDbUrl: eissn: 1558-366X dateEnd: 99991231 omitProxy: false ssIdentifier: ssj0004895 issn: 1521-9615 databaseCode: RIE dateStart: 19990101 isFulltext: true titleUrlDefault: https://ieeexplore.ieee.org/ providerName: IEEE |
| link | http://cvtisr.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwlV3PS8MwFH7M4cGLc5vi_EUOIgqrW38sSb3p2PDiEFTYrbTpCw5GJ6vTf9-XNt120IO3tIRS8pK8773kfR_ApetxxEDRSgs4OoSIaR9UPHVETBaXsRvEuhSbEJOJnE7D5xp017UwiFhcPsNb0yzO8tOFWplUWY-CJk9IvgM7QvCyVmtTAykLhRXjjpyQ3PSGT7P3NHwZlcyUrqno2_I_W4IqhT8ZN_73Jwewb3Ejuy8N3YQaZi1oWAzJ7ArNW9CsmuzaMkrftCGr1IjY8D1e5HfswZRpmWeCf6wi32BFaRYye3WLoaUqzFmcpaysnKRJkbPvMsHOTA53lhXfmM80MutN80N4G49eh4-OFVpwFOEL7khNQU_sCq4JAWHqC9VPKSwTbhgEoesJTwXSTwdJikoOtKd13Edznqf7invItX8E9WyR4TEwHqLHlWEEStLAx0QSQFLSjweccGYSeB3oVsMfKctCbsQw5lERjfTDyFjLiGOGEVmrA1fr7h8l_cZfHdvGSutO1kAnv78-hT0CPmGZSjmD-udyheewq75oGJcXxcT6AS80y8Y |
| linkProvider | IEEE |
| linkToHtml | http://cvtisr.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwlV3dS8MwED_mB-iLOj_w2zyIKKyuTbM09U2HMlGHoMLeSpdecCCdrE7_fS9tNvegD76lJZSSS3K_u-R-P4DjgEtEoWmlCYkeIWLaB7XMvCgli6s0EKmpxCaiblf1evFjDRrTWhhELC-f4bltlmf52VCPbaqsSUETj5Scg4WWENyvqrV-qiBVqbFiHZIXk6P-YdRsPrSfrituysDW9M14oBlJldKj3Kz-71_WYMUhR3ZZmboONczXYdWhSObWaLEO9UmTnTpO6bMNyCd6RKz9mg6LC3ZlC7XsMwFANqHfYGVxFjJ3eYuhIyssWJpnrKqdpGlRsK8qxc5sFneQl994Gxhkzp8Wm_Byc_3c7nhOasHThDCkpwyFPWkQSUMYCLMw0n5GgVkUxELEAY-4FirMWv0MtWoZbkzqoz3RM76WHKUJt2A-H-a4DUzGyKW2nED9TITYVwSRtArTliSk2Rd8BxqT4U-04yG3chhvSRmP-HFirWXlMeOErLUDJ9Pu7xUBx18dN6yVpp2cgXZ_f30ES53nh_vk_rZ7twfLBIPiKrGyD_MfozEewKL-pCEdHZaT7Bvw688N |
| openUrl | ctx_ver=Z39.88-2004&ctx_enc=info%3Aofi%2Fenc%3AUTF-8&rfr_id=info%3Asid%2Fsummon.serialssolutions.com&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rft.genre=article&rft.atitle=Managing+Chaos%3A+Bridging+the+cultural+divide+between+engineers+and+scientists+working+within+the+life+sciences&rft.jtitle=Computing+in+science+%26+engineering&rft.au=Killcoyne%2C+Sarah&rft.au=Boyle%2C+John&rft.date=2019&rft.pub=IEEE&rft.issn=1521-9615&rft.spage=1&rft.epage=1&rft_id=info:doi/10.1109%2FMCSE.2009.155&rft.externalDocID=5232786 |
| thumbnail_l | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/lc.gif&issn=1521-9615&client=summon |
| thumbnail_m | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/mc.gif&issn=1521-9615&client=summon |
| thumbnail_s | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/sc.gif&issn=1521-9615&client=summon |