An economy of details: standards and data reusability.

IF 2.6 Q2 BIOCHEMICAL RESEARCH METHODS Synthetic biology (Oxford, England) Pub Date : 2023-01-01 DOI:10.1093/synbio/ysac030
Ana Delgado
{"title":"An economy of details: standards and data reusability.","authors":"Ana Delgado","doi":"10.1093/synbio/ysac030","DOIUrl":null,"url":null,"abstract":"<p><p>Reusability has been a key issue since the origins of the parts-based approach to synthetic biology. Starting with the BioBrick™ standard part, multiple efforts have aimed to make biology more exchangeable. The reusability of parts and other deoxyribonucleic acid-based data has proven over time to be challenging, however. Drawing on a series of qualitative interviews and an international workshop, this article explores the challenges of reusability in real laboratory practice. It shows particular ways that standards are experienced as presenting shortcomings for capturing the kinds of contextual information crucial for scientists to be able to reuse biological parts and data. I argue that researchers in specific laboratories develop a sense of how much circumstantial detail they need to share for others to be able to make sense of their data and possibly reuse it. When choosing particular reporting formats, recharacterizing data to gain closer knowledge or requesting additional information, researchers enact an 'economy of details'. The farther apart two laboratories are in disciplinary, epistemological, technical and geographical terms, the more detailed information needs to be captured for data to be reusable across contexts. In synthetic biology, disciplinary distance between computing science and engineering researchers and experimentalist biologists is reflected in diverging views on standards: what kind of information should be included to enable reusability, what kind of information can be captured by standards at all and how they may serve to produce and circulate knowledge. I argue that such interdisciplinary tensions lie at the core of difficulties in setting standards in synthetic biology.</p>","PeriodicalId":74902,"journal":{"name":"Synthetic biology (Oxford, England)","volume":"8 1","pages":"ysac030"},"PeriodicalIF":2.6000,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/e7/47/ysac030.PMC9817096.pdf","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Synthetic biology (Oxford, England)","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.1093/synbio/ysac030","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"BIOCHEMICAL RESEARCH METHODS","Score":null,"Total":0}
引用次数: 0

Abstract

Reusability has been a key issue since the origins of the parts-based approach to synthetic biology. Starting with the BioBrick™ standard part, multiple efforts have aimed to make biology more exchangeable. The reusability of parts and other deoxyribonucleic acid-based data has proven over time to be challenging, however. Drawing on a series of qualitative interviews and an international workshop, this article explores the challenges of reusability in real laboratory practice. It shows particular ways that standards are experienced as presenting shortcomings for capturing the kinds of contextual information crucial for scientists to be able to reuse biological parts and data. I argue that researchers in specific laboratories develop a sense of how much circumstantial detail they need to share for others to be able to make sense of their data and possibly reuse it. When choosing particular reporting formats, recharacterizing data to gain closer knowledge or requesting additional information, researchers enact an 'economy of details'. The farther apart two laboratories are in disciplinary, epistemological, technical and geographical terms, the more detailed information needs to be captured for data to be reusable across contexts. In synthetic biology, disciplinary distance between computing science and engineering researchers and experimentalist biologists is reflected in diverging views on standards: what kind of information should be included to enable reusability, what kind of information can be captured by standards at all and how they may serve to produce and circulate knowledge. I argue that such interdisciplinary tensions lie at the core of difficulties in setting standards in synthetic biology.

Abstract Image

查看原文
分享 分享
微信好友 朋友圈 QQ好友 复制链接
本刊更多论文
节约细节:标准和数据可重用性。
自合成生物学以部件为基础的方法诞生以来,可重用性一直是一个关键问题。从BioBrick™标准部件开始,多方努力旨在使生物更具可交换性。然而,随着时间的推移,零件和其他基于脱氧核糖核酸的数据的可重用性已被证明是具有挑战性的。通过一系列定性访谈和国际研讨会,本文探讨了可重用性在真实实验室实践中的挑战。它显示了一些特定的方式,即标准在获取对科学家能够重复使用生物部件和数据至关重要的各种上下文信息方面存在缺陷。我认为,特定实验室的研究人员会形成一种意识,即他们需要分享多少具体细节,以便其他人能够理解他们的数据,并可能重用这些数据。当选择特定的报告格式,重新描述数据以获得更深入的知识或要求额外的信息时,研究人员制定了“细节经济”。两个实验室在学科、认识论、技术和地理方面的距离越远,就需要获取更详细的信息,以便在不同环境中重复使用数据。在合成生物学中,计算科学和工程研究人员以及实验生物学家之间的学科距离反映在对标准的不同看法上:应该包括什么样的信息以实现可重用性,什么样的信息可以被标准捕获,以及它们如何服务于产生和传播知识。我认为,这种跨学科的紧张关系是制定合成生物学标准困难的核心所在。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 去求助
来源期刊
自引率
0.00%
发文量
0
期刊最新文献
New gene sensors enable precise cell monitoring and control without altering gene sequence. In vitro transcription-based biosensing of glycolate for prototyping of a complex enzyme cascade. Cell-free synthesis of infective phages from in vitro assembled phage genomes for efficient phage engineering and production of large phage libraries. Data hazards in synthetic biology. Navigating the 'moral hazard' argument in synthetic biology's application.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
0
微信
客服QQ
Book学术公众号 扫码关注我们
反馈
×
意见反馈
请填写您的意见或建议
请填写您的手机或邮箱
已复制链接
已复制链接
快去分享给好友吧!
我知道了
×
扫码分享
扫码分享
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术
文献互助 智能选刊 最新文献 互助须知 联系我们:info@booksci.cn
Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。
Copyright © 2023 Book学术 All rights reserved.
ghs 京公网安备 11010802042870号 京ICP备2023020795号-1