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Ethical considerations in utilizing artificial intelligence for analyzing the NHGRI's History of Genomics and Human Genome Project archives. 利用人工智能分析 NHGRI 的基因组学历史和人类基因组计划档案的伦理考虑。
Pub Date : 2024-03-01 Epub Date: 2024-03-05 DOI: 10.7191/jeslib.811
Mohammad Hosseini, Spencer Hong, Kristi Holmes, Kris Wetterstrand, Christopher Donohue, Luis A Nunes Amaral, Thomas Stoeger

Understanding "how to optimize the production of scientific knowledge" is paramount to those who support scientific research-funders as well as research institutions-to the communities served, and to researchers. Structured archives can help all involved to learn what decisions and processes help or hinder the production of new knowledge. Using artificial intelligence (AI) and large language models (LLMs), we recently created the first structured digital representation of the historic archives of the National Human Genome Research Institute (NHGRI), part of the National Institutes of Health. This work yielded a digital knowledge base of entities, topics, and documents that can be used to probe the inner workings of the Human Genome Project, a massive international public-private effort to sequence the human genome, and several of its offshoots like The Cancer Genome Atlas (TCGA) and the Encyclopedia of DNA Elements (ENCODE). The resulting knowledge base will be instrumental in understanding not only how the Human Genome Project and genomics research developed collaboratively, but also how scientific goals come to be formulated and evolve. Given the diverse and rich data used in this project, we evaluated the ethical implications of employing AI and LLMs to process and analyze this valuable archive. As the first computational investigation of the internal archives of a massive collaborative project with multiple funders and institutions, this study will inform future efforts to conduct similar investigations while also considering and minimizing ethical challenges. Our methodology and risk-mitigating measures could also inform future initiatives in developing standards for project planning, policymaking, enhancing transparency, and ensuring ethical utilization of artificial intelligence technologies and large language models in archive exploration.

了解 "如何优化科学知识的生产 "对于那些支持科学研究的人--资助者和研究机构--所服务的社区和研究人员都至关重要。结构化档案可以帮助所有相关人员了解哪些决策和流程有助于或阻碍新知识的产生。最近,我们利用人工智能(AI)和大型语言模型(LLMs),为美国国立卫生研究院(National Institutes of Health)下属的国家人类基因组研究所(NHGRI)的历史档案创建了首个结构化数字表征。这项工作产生了一个包含实体、主题和文件的数字知识库,可用于探究人类基因组计划的内部运作,该计划是国际社会为人类基因组测序而开展的一项大规模公私合作项目,其分支项目包括癌症基因组图谱(TCGA)和 DNA 元素百科全书(ENCODE)。由此产生的知识库不仅有助于了解人类基因组计划和基因组学研究是如何合作发展的,还有助于了解科学目标是如何制定和发展的。鉴于该项目使用的数据多样而丰富,我们评估了使用人工智能和 LLM 处理和分析这一宝贵档案的伦理意义。作为对一个有多个资助者和机构参与的大型合作项目的内部档案进行的首次计算调查,本研究将为今后开展类似调查提供参考,同时也将考虑并尽量减少伦理挑战。我们的方法和风险缓解措施还可以为未来制定项目规划标准、政策制定、提高透明度以及确保在档案探索中合乎道德地使用人工智能技术和大型语言模型提供参考。
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引用次数: 0
The Creative Urge 创作的冲动
Pub Date : 2023-12-12 DOI: 10.7191/jeslib.859
R. Raboin
Writing can be a vocation or avocation, but either way it’s steeped in the author’s creativity. Artificial Intelligence (AI) powered writing could assist the author in discovering new ideas and shortening the writing process. The debate over these new tools is in its infancy, but the urge to create without using AI is firmly rooted in society.
写作可以是一种职业,也可以是一种业余爱好,但无论哪种方式,都浸透着作者的创造力。人工智能(AI)驱动的写作可以帮助作者发现新想法,缩短写作过程。关于这些新工具的争论还处于初级阶段,但不使用人工智能进行创作的冲动已深深扎根于社会之中。
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引用次数: 0
Title Pending 740 待定标题740
Pub Date : 2023-10-13 DOI: 10.7191/jeslib.740
Joanna Thielen, Wanda Marsolek, Mikala Narlock
The pressure to do things quickly is a constant in our professional lives as data curators. But what if we slowed down our work? Taking inspiration from the Slow Movement and its various sub-genres, we propose the idea of Slow Curation, specifically for the application of curating research data. Data curation is the process of reviewing datasets to prepare them for sharing, use, and reuse. We have identified areas where Slow can be embraced in the Data Curation Network’s CURATE(D) model. We also advocate for a few ways, outside of curation, where data curators can collaboratively advocate for Slowing down our work for the better. Join us as we practice radical self-care and advocate for our communities by embracing Slow and easing our way out of Busy culture.Positionality Statements:All authors are employed at large and wealthy doctoral granting institutions in the United States. Their identities and experiences have directly informed and influenced this piece.Joanna is a cisgender, white, heterosexual, able bodied female.&nbsp;Wanda is a white gender non-conforming queer, able bodied person who is a first generation undergraduate and graduate college studentMikala is a cisgender, white, heterosexual, able bodied female.
作为数据管理员,快速完成任务的压力在我们的职业生涯中一直存在。但如果我们放慢工作速度呢?从慢速运动及其各种分支中获得灵感,我们提出了慢速策展的想法,特别是针对策展研究数据的应用。数据管理是审查数据集的过程,以便为共享、使用和重用做好准备。我们已经确定了可以在数据管理网络的CURATE(D)模型中使用Slow的领域。我们还提倡在管理之外的一些方式,在这些方式中,数据管理人员可以共同倡导放慢我们的工作速度,使其变得更好。加入我们,让我们实践激进的自我护理,倡导我们的社区,拥抱慢节奏,轻松地摆脱忙碌的文化。职位声明:所有作者都在美国大型和富有的博士学位授予机构工作。他们的身份和经历直接影响了这件作品。乔安娜是一个顺性别,白人,异性恋,身体健全的女性。旺达是一个白人性别不一致的酷儿,身体健全的人,她是第一代本科生和研究生。米卡拉是一个顺性别,白人,异性恋,身体健全的女性。
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引用次数: 0
A Problem Shared Is a Community Created: Recommendations for Cross-Institutional Collaborations. 共同的问题就是共同的创造:跨机构合作建议》。
Pub Date : 2023-01-01 Epub Date: 2023-12-20 DOI: 10.7191/jeslib.754
Marla Hertz, Kelsey Badger, Lena Bohman, Lucy Carr Jones, Christine Nieman Hislop, Katy Smith, Hao Ye

Committee work is a requisite job function for many in academia, yet designing a productive collaborative experience often remains a challenge. In this article, we reflect on our experiences as part of a successful cross-institutional working group and describe strategies to improve leadership structure, group dynamics, accountability, and incentives for collaborative projects. As of January 2023, the National Institutes of Health (NIH) Data Management & Sharing (DMS) Policy requires investigators applying for funding to submit a Data Management and Sharing Plan (DMS Plan) that describes how scientific data will be managed, preserved, and shared. In response to this new policy, a community of more than 30 librarians and other research data professionals convened the Working Group on NIH DMSP Guidance, collaboratively producing comprehensive guidance about the policy for researchers and research support staff. In less than a year, the working group produced glossaries of NIH and data management jargon, an example data management and sharing plan, a directory of existing example plans, checklists for researchers and librarians, and an interactive repository finder. This group was a successful grassroots effort by contributors with diverse expertise and backgrounds. We discuss practical strategies for each stage of activity throughout the lifecycle of the working group; from recruiting members, designing pathways to encourage participation from busy professionals, structuring the meetings to facilitate progress and productivity, and disseminating final products broadly. We invite fellow librarians, data professionals, and academics to apply and build upon these strategies to tackle cross-institutional challenges.

委员会工作是学术界许多人的必备工作职能,但设计富有成效的合作体验往往仍是一项挑战。在本文中,我们将反思自己作为一个成功的跨机构工作组成员的经验,并介绍改善领导结构、小组动态、问责制和合作项目激励机制的策略。自 2023 年 1 月起,美国国立卫生研究院(NIH)的数据管理与共享(DMS)政策要求申请资金的研究人员提交一份数据管理与共享计划(DMS 计划),说明如何管理、保存和共享科学数据。为了响应这项新政策,一个由 30 多名图书馆员和其他研究数据专业人员组成的团体召集了 NIH DMSP 指南工作组,共同为研究人员和研究支持人员制定了有关该政策的综合指南。在不到一年的时间里,工作组编制了 NIH 和数据管理术语词汇表、数据管理和共享计划范例、现有范例计划目录、研究人员和图书馆员核对表以及交互式资源库搜索器。该小组由具有不同专业知识和背景的贡献者组成,是一项成功的基层工作。我们讨论了工作组整个生命周期中每个活动阶段的实用策略,包括招募成员、设计途径以鼓励繁忙的专业人员参与、组织会议以促进进展和生产力,以及广泛传播最终产品。我们邀请其他图书馆员、数据专业人员和学者应用和借鉴这些策略,以应对跨机构的挑战。
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引用次数: 0
Train the Teacher: Practical guidance for effective, critical teaching approaches for science and data librarians 培训教师:科学和数据图书馆员有效、批判性教学方法的实践指导
Pub Date : 2022-09-01 DOI: 10.7191/jeslib.617
Megan M. Bresnahan, Dianne N. Brown
This article describes an approach to guiding science and data librarians in their development as teachers, and it outlines practical skills that are important for effective teaching in the context of science information and data literacies. The authors designed and delivered two workshops for science and data librarians. In each workshop, participants explored foundational learning theories and practical tools for teaching more effectively, including lesson planning, writing learning outcomes, designing classroom activities, assessing learning, managing the classroom, and reflecting on teaching. The workshop has evolved to introduce critical pedagogical approaches as well. Based on the content of these workshops, participant feedback, and the authors’ experiences, we detail practical, on-the-ground strategies for designing and facilitating effective information and data literacy instruction for STEM audiences. As partners in science education, librarians need practical educational opportunities to hone their teaching skills and develop a teacher identity.
本文描述了一种指导科学和数据图书馆员作为教师发展的方法,并概述了在科学信息和数据文学背景下进行有效教学的重要实践技能。作者为科学和数据图书馆员设计并举办了两次讲习班。在每一次研讨会上,参与者都探索了更有效教学的基础学习理论和实用工具,包括课程规划、撰写学习成果、设计课堂活动、评估学习、管理课堂和反思教学。研讨会也逐渐引入了批判性的教学方法。根据这些研讨会的内容、参与者的反馈和作者的经验,我们详细介绍了为STEM受众设计和促进有效的信息和数据扫盲教学的实际策略。作为科学教育的合作伙伴,图书馆员需要实际的教育机会来磨练他们的教学技能并培养教师身份。
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引用次数: 1
Migrating a Journal Platform: Stars Wars and a New Future 迁移期刊平台:星球大战与新未来
Pub Date : 2022-09-01 DOI: 10.7191/jeslib.630
R. Raboin
Moving to a new journal platform brings opportunities toevolve services so that users and the publishing team will benefit. There aremany people involved in this type of migration, the vendor, authors who havewaited patiently for their article to be published, but most importantly is theteam who have spent years to make this new platform a reality.
转移到一个新的期刊平台带来了提供服务的机会,用户和出版团队将从中受益。有很多人参与了这种类型的迁移,供应商,作者耐心地等待他们的文章发表,但最重要的是,他们花了多年时间将这个新平台变成现实。
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引用次数: 0
Birds, Groundhogs, and Squirrels 鸟、土拨鼠和松鼠
Pub Date : 2022-05-12 DOI: 10.7191/jeslib.2022.1239
R. Raboin
It takes a strong data science community and many stakeholders to make disparate types of data work so that you and I can continue to explore and learn. Being proactive by including diversity, equity, inclusion, and accessibility (DEIA) policies and practices, along with evaluating liaison/outreach roles and established programs and tools, will go a long way in strengthening the library, its staff and services, and the institution. Fighting for the “food” you need to grow the profession and data services is key to the future of the RDM library community.
它需要一个强大的数据科学社区和许多利益相关者使不同类型的数据工作,以便您和我可以继续探索和学习。积极主动地将多样性、公平性、包容性和可及性(DEIA)政策和实践纳入其中,同时评估联络/外展角色和已建立的项目和工具,将大大有助于加强图书馆、其员工和服务以及机构。为发展专业和数据服务所需的“食物”而战是RDM图书馆社区未来的关键。
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引用次数: 0
Taking the TU Delft Carpentries Workshops Online 代尔夫特理工大学木工工作室在线
Pub Date : 2022-05-09 DOI: 10.7191/jeslib.2022.1221
E. Plomp, Emmy Tsang, Paula M. Martinez Lavanchy
Due to the COVID-19 pandemic, Delft University of Technology in the Netherlands (TU Delft) stopped its activities on campus until autumn 2021 and moved all teaching activities to an online setting. This article describes the challenges and lessons learned from successfully moving basic programming workshops, Software Carpentry workshops, online. The article details the local TU Delft context, the online workshop tools that were employed, and the roles that the organising team played to organise and run these online workshops. To successfully adapt to the online context, it was important to adjust the original planning and programme for the Carpentry workshops. General challenges of online workshops and solutions that worked for the TU Delft team are also shared. Through iteratively developing the online workshops over the past year, the team has enhanced both learners’ and organisers’ experience. The lessons learned will continue to be valuable when the workshops are transitioned back to a physical setting when COVID-19 protective measures are lifted.
由于新冠肺炎大流行,荷兰代尔夫特理工大学(TU Delft)在2021年秋季之前停止了校园活动,并将所有教学活动转移到了网上。本文描述了成功地将基础编程研讨会、软件木工研讨会转移到网上所面临的挑战和经验教训。这篇文章详细介绍了代尔夫特大学当地的背景、使用的在线研讨会工具,以及组织团队在组织和运行这些在线研讨会时所扮演的角色。为了成功适应在线环境,调整木工车间的原始规划和计划非常重要。还分享了代尔夫特大学团队在线研讨会和解决方案的一般挑战。在过去的一年里,通过反复开发在线研讨会,该团队增强了学习者和组织者的体验。当讲习班在新冠肺炎防护措施解除后恢复到物理环境时,所吸取的经验教训将继续具有价值。
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引用次数: 0
Depositing Data: A Usability Study of the Texas Data Repository 存储数据:德克萨斯数据存储库的可用性研究
Pub Date : 2022-05-09 DOI: 10.7191/jeslib.2022.1233
Zhihong Xu, J. Watts, Sarah Bankston, Laura Sare
Objective: The purpose of this study is to examine the usability of the Texas Data Repository (TDR) for the data depositors who are unfamiliar with its interface and use the results to improve user experience.Methods: This mixed-method research study collected qualitative and quantitative data through a pre-survey, a task-oriented usability test with a think-aloud protocol, and an exit questionnaire. Analysis of the quantitative (i.e., descriptive statistics) and qualitative data (e.g., content analysis of the thinking-aloud protocols) were employed to examine the TDR’s usability for first-time data depositors at Texas A&M University.Results: While the study revealed that the users were generally satisfied with their experience, the data suggest that a majority of the participants had difficulty understanding the difference between a dataverse collection and dataset, and often found adding or editing metadata overwhelming. The platform’s tiered model for metadata description is core to its function, but many participants did not have an accurate mental model of the platform, which left them scrolling up and down the page or jumping back and forth between different tabs and pages to perform a single task. Based on the results, the authors made some recommendations.Conclusions: While this paper relies heavily on the context of the Harvard Dataverse repository platform, the authors posit that any self-deposit model, regardless of platform, could benefit from these recommendations. We noticed that completing various metadata fields in the TDR required participants to pivot their mindset from a data creator to that of a data curator. Moreover, the methods used to investigate the usability of the repository can be used to develop additional studies in a variety of repository and service model contexts.
目的:本研究的目的是为不熟悉德克萨斯数据存储库(TDR)界面的数据存款人检查其可用性,并使用结果来改善用户体验。方法:本研究通过预调查、任务导向可用性测试和退出问卷收集定性和定量数据。采用定量分析(即描述性统计)和定性分析(例如,大声思考协议的内容分析)来检验得克萨斯农工大学TDR对首次数据存款人的可用性。结果:虽然研究显示用户总体上对他们的体验感到满意,但数据表明,大多数参与者难以理解数据厌恶收集和数据集之间的区别,并且经常发现添加或编辑元数据是压倒性的。该平台用于元数据描述的分层模型是其功能的核心,但许多参与者对该平台没有准确的心理模型,这使得他们在页面上上下滚动,或者在不同的选项卡和页面之间来回切换,以执行单个任务。在此基础上,提出了几点建议。结论:虽然本文在很大程度上依赖于哈佛数据库存储库平台的背景,但作者认为,任何自存储模型,无论平台如何,都可以从这些建议中受益。我们注意到,在TDR中完成各种元数据字段需要参与者将他们的思维从数据创建者转变为数据管理员。此外,用于调查存储库可用性的方法可用于在各种存储库和服务模型上下文中开展额外的研究。
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引用次数: 2
Translating Liaison Librarians to the Scientific Community 翻译联络图书馆员到科学界
Pub Date : 2022-03-08 DOI: 10.7191/jeslib.2022.1229
J. Atkins, Kelsey Badger, Claire Jordan, H. G. Nelsen, Katerina Ozment, Olivia Young
Objective: This study explores the root causes that undermine successful collaborations between scientists and their library liaisons to improve outreach to this population.Methods: This paper uses the Five Whys Technique to explore the reasons why many scientists are unaware of the breadth of services offered by liaison librarians. Existing outreach strategies that address these obstacles are interpreted through the lens of implementation science theories and process models, including Normalization Process Theory.Results: A total of four recommendations—two for liaison librarians and two for libraries as institutions—are provided to enhance the perceived value of liaison services. The recommendations for individuals include aiming to understand scientists’ needs more comprehensively and actively increasing the visibility of services that respond to those needs. Those for libraries focus on cross-functional teams and new forms of assessment.Conclusions: These recommendations emphasize the benefits of collaboration to liaisons, to library programs at large, and to the faculty that liaisons serve. Implementation science can help librarians to understand why certain outreach strategies bring success, and how new services can be implemented more effectively.
目的:本研究探讨了破坏科学家及其图书馆联络人之间成功合作的根本原因,以改善对这一人群的宣传。方法:运用“五个为什么”技术,探究许多科学家不知道联络馆员所提供服务的广度的原因。通过实施科学理论和过程模型,包括规范化过程理论,对解决这些障碍的现有外联策略进行了解释。结果:共提出了四项建议,其中两项针对联络馆员,两项针对图书馆作为机构,以提高联络服务的感知价值。针对个人的建议包括旨在更全面地了解科学家的需求,并积极提高满足这些需求的服务的知名度。图书馆的重点是跨职能团队和新的评估形式。结论:这些建议强调了合作对联络人、整个图书馆项目以及联络人所服务的教师的好处。实施科学可以帮助图书馆员理解为什么某些外联策略会带来成功,以及如何更有效地实施新服务。
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引用次数: 0
期刊
Journal of escience librarianship
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