Bibliography

Bibliography#

This file consist of a complete bibliography for this book sorted alphabetically

ACdK+19: Peter M. Abuja, Tamara Carapina, Martin de Kort, Michael Raess, Chris Tieken, and Nigel Wagstaff. Academia - industry collaboration best practices guide. 2019. URL: https://eatris.eu/wp-content/uploads/2019/12/CORBEL_Academia_Industry_Collaboration_Best_Practices_Guide.pdf, doi:10.5281/zenodo.2615365.
Ana20: Inc. Anaconda. 2020 state of data science. 2020. URL: https://know.anaconda.com/rs/387-XNW-688/images/Anaconda-SODS-Report-2020-Final.pdf.
AKA+22: Andrey Andreev, Valerie Komatsu, Paula Almiron, Kasey Rose, Alexandria Hughes, and Maurice Y Lee. Welcome to the lab. eLife, May 2022. URL: https://doi.org/10.7554/elife.79627, doi:10.7554/elife.79627.
BDC20: Amine Boulemtafes, Abdelouahid Derhab, and Yacine Challal. A review of privacy-preserving techniques for deep learning. Neurocomputing, 384:21–45, April 2020. doi:10.1016/j.neucom.2019.11.041.
BLM+22: Hannah Brown, Katherine Lee, Fatemehsadat Mireshghallah, Reza Shokri, and Florian Tramèr. What Does it Mean for a Language Model to Preserve Privacy? arXiv:2202.05520 [cs, stat], February 2022. arXiv:2202.05520.
Bry15: Jenny Bryan. How to name files. May 2015. [Online; accessed 19. Nov. 2020]. URL: https://speakerdeck.com/jennybc/how-to-name-files.
CLE+19: Nicholas Carlini, Chang Liu, Úlfar Erlingsson, Jernej Kos, and Dawn Song. The secret Sharer: Evaluating and testing unintended memorization in neural networks. In Proceedings of the 28th USENIX Security Symposium, 267–284. USENIX Association, February 2019. arXiv:1802.08232.
CB20: V. Bala Chaudhary and Asmeret Asefaw Berhe. Ten simple rules for building an antiracist lab. PLOS Computational Biology, 16(10):e1008210, October 2020. URL: https://doi.org/10.1371/journal.pcbi.1008210, doi:10.1371/journal.pcbi.1008210.
Cha18: Dalmeet Singh Chawla. Assigning authorship for research papers can be tricky. these approaches can help. December 2018. URL: https://www.science.org/content/article/assigning-authorship-research-papers-can-be-tricky-these-approaches-can-help (visited on 2023-04-06).
Coa22: Camden Coalition. Understanding preferred language for people with lived experience. Jun 2022. URL: https://camdenhealth.org/blog/understanding-preferred-language-for-people-with-lived-experience/ (visited on 2023-11-10).
CNC18: Maximin Coavoux, Shashi Narayan, and Shay B Cohen. Privacy-preserving neural representations of text. In Proceedings of the 2018 Conference on Empirical Methods in Natural Language Processing, 1–10. 2018.
Cow20: Wind Cowles. Research Guides: Research Data Management at Princeton: File naming and structure. Oct 2020. [Online; accessed 19. Nov. 2020]. URL: https://libguides.princeton.edu/c.php?g=102546&p=930626.
dRS20: Melanie Dulong de Rosnay and Felix Stalder. Digital commons. Internet Policy Review, December 2020. URL: https://policyreview.info/concepts/digital-commons.
FBDD20: Oluwaseyi Feyisetan, Borja Balle, Thomas Drake, and Tom Diethe. Privacy- And utility-preserving textual analysis via calibrated multivariate perturbations. In WSDM 2020 - Proceedings of the 13th International Conference on Web Search and Data Mining, 178–186. Association for Computing Machinery, Inc, October 2020. arXiv:1910.08902, doi:10.1145/3336191.3371856.
fHR21: National Institude for Health and Care Research. Different experiences: a framework for considering who might be involved in research. 2021. URL: https://www.nihr.ac.uk/documents/different-experiences-a-framework-for-considering-who-might-be-involved-in-research/27387 (visited on 2023-11-10).
Fri24: Louise Frion. POLICY BRIEF, Digital Commons as Alternative Systems of Value, by Louise Frion. June 2024. [Online; accessed 6. Jun. 2024]. URL: https://www.sciencespo.fr/public/chaire-numerique/en/2023/06/15/policy-brief-digital-commons-as-an-alternative-system-of-value-by-louise-frion.
GD20: Sarah Goff-Dupont. How to be a successful project owner (without micromanaging). Work Life by Atlassian, Aug 2020. URL: https://www.atlassian.com/blog/productivity/guide-to-project-ownership-without-micromanaging.
GAA+21: Sarah Greene, Gwen Antell, Jake Atterby, Rehemat Bhatia, Emma Dunne, Sam Giles, Sebastian Groh, Emma Hanson, Jason Hilton, Hazel Knight, Peter Kraftl, Esme Morgan, Isobel Rhodes, Francisca Rockey, Shivani Singh, Carl Stevenson, Simiao Sun, Bridget Warren, James Wheeley, and Kweku Yamoah. Safety and belonging in the field: a checklist for educators. EarthArxiv, August 2021. URL: https://doi.org/10.31223/x53p6h, doi:10.31223/x53p6h.
HCH+15: Wilhelm Hasselbring, Leslie Carr, Simon Hettrick, Heather Packer, and Thanassis Tiropanis. How should individual participant data (IPD) from publicly funded clinical trials be shared? BMC Medicine, 13(298):1–7, 2015. doi:10.1186/s12916-015-0532-z.
HMC+21: Soleil Hernandez, Raymond Mumme, Laurence Court, Daniel El Basha, Skylar Gay, Barbara Marquez, Yao Xiao, Kai Huang, Hana Baroudi, Wenhua Cao, Carlos Cardenas, Raphael Douglas, Jack Duryea, Zaphanlene Kaffey, Deborah Mann, Kelly Nealon, Tucker Netheron, Callistus Nguyen, Kyuhak Oh, Adenike Olanrewaju, Carlos Sjogreen, DJ Rhee, Jinzhong Yang, Cenji Yu, Lifei Zhang, Yao Zhao, Hamid Ziyaee, and Mary Gronberg. Improving lab culture through self-assessment: a case study. bioRxiv, December 2021. URL: https://doi.org/10.1101/2021.12.08.471870, doi:10.1101/2021.12.08.471870.
HO06: Charlotte Hess and Elinor Ostrom. Understanding Knowledge as a Commons: From Theory to Practice. The MIT Press, Cambridge, MA, USA, December 2006. ISBN 978-0-26225634-6. doi:10.7551/mitpress/6980.001.0001.
Hod15: Amy Hodge. Best practices for file naming. 2015. [Online; accessed 19. Nov. 2020]. URL: https://library.stanford.edu/research/data-management-services/data-best-practices/best-practices-file-naming.
JBK+19: Mijke Jetten, Boudewijn van den Berg, Mateusz Kuzak, Iza Witkowska, Lena Karvovskaya, Carlos Teijeiro Barjas, Ellen Leenarts, Fieke Schoots, Maria Cruz, Esther Plomp, Ellen Verbakel, Paula Martinez Lavanchy, Barteld Braaksma, Ruurd Schoonhoven, and Ingeborg Verheul. 23 Things: Support for Research Data. Updated version for the Dutch Community by the LCRDM task group RDA/23 Things. October 2019. URL: https://doi.org/10.5281/zenodo.3465896, doi:10.5281/zenodo.3465896.
JGM+21: Mijke Jetten, Marjan Grootveld, Annemie Mordant, Mascha Jansen, Margreet Bloemers, Margriet Miedema, and Celia W.G. van Gelder. Professionalising data stewardship in the Netherlands. Competences, training and education. Dutch roadmap towards national implementation of FAIR data stewardship. March 2021. URL: https://doi.org/10.5281/zenodo.4623713, doi:10.5281/zenodo.4623713.
KMA+19: Peter Kairouz, H. Brendan McMahan, Brendan Avent, Aurélien Bellet, Mehdi Bennis, Arjun Nitin Bhagoji, Keith Bonawitz, Zachary Charles, Graham Cormode, Rachel Cummings, Rafael G. L. D'Oliveira, Salim El Rouayheb, David Evans, Josh Gardner, Zachary Garrett, Adrià Gascón, Badih Ghazi, Phillip B. Gibbons, Marco Gruteser, Zaid Harchaoui, Chaoyang He, Lie He, Zhouyuan Huo, Ben Hutchinson, Justin Hsu, Martin Jaggi, Tara Javidi, Gauri Joshi, Mikhail Khodak, Jakub Konečný, Aleksandra Korolova, Farinaz Koushanfar, Sanmi Koyejo, Tancrède Lepoint, Yang Liu, Prateek Mittal, Mehryar Mohri, Richard Nock, Ayfer Özgür, Rasmus Pagh, Mariana Raykova, Hang Qi, Daniel Ramage, Ramesh Raskar, Dawn Song, Weikang Song, Sebastian U. Stich, Ziteng Sun, Ananda Theertha Suresh, Florian Tramèr, Praneeth Vepakomma, Jianyu Wang, Li Xiong, Zheng Xu, Qiang Yang, Felix X. Yu, Han Yu, and Sen Zhao. Advances and Open Problems in Federated Learning. arXiv:1912.04977 [cs], December 2019. arXiv:1912.04977.
Len12: Patrick Lencioni. The Five Dysfunctions of a Team: Team Assessment. Pfeiffer, San Francisco, Calif, 2012. ISBN 978-1-118-12730-8. URL: https://www.worldcat.org/title/794274430.
LAW+17: Max Liboiron, Justine Ammendolia, Katharine Winsor, Alex Zahara, Hillary Bradshaw, Jessica Melvin, Charles Mather, Natalya Dawe, Emily Wells, France Liboiron, Bojan Furst, Coco Coyle, Jacquelyn Saturno, Melissa Novacefski, Sam Westscott, and Grandmother Liboiron. Equity in author order: a feminist laboratory's approach. Catalyst: Feminism, Theory, Technoscience, 3(2):1–17, October 2017. URL: https://doi.org/10.28968/cftt.v3i2.28850, doi:10.28968/cftt.v3i2.28850.
Mae19: Fernando T. Maestre. Ten simple rules towards healthier research labs. PLOS Computational Biology, 15(4):e1006914, April 2019. URL: https://doi.org/10.1371/journal.pcbi.1006914, doi:10.1371/journal.pcbi.1006914.
Mey18: Michelle Meyer. Practical Tips for Ethical Data Sharing. Advances in Methods and Practices in Psychological Science, 1(1):131––144, 2018. doi:10.1177/2515245917747656.
MNV+17: Barend Mons, Cameron Neylon, Jan Velterop, Michel Dumontier, Luiz Olavo Bonino da Silva Santos, and Mark Wilkinson. Cloudy, increasingly fair; revisiting the fair data guiding principles for the european open science cloud. Information Services & Use, 37:1–8, 02 2017. doi:10.3233/ISU-170824.
NS08: Arvind Narayanan and Vitaly Shmatikov. Robust de-anonymization of large sparse datasets. In Proceedings - IEEE Symposium on Security and Privacy, 111–125. 2008. doi:10.1109/SP.2008.33.
Nie13: Kaare M. Nielsen. Biosafety data as confidential business information. PLOS Biology, 11(3):1–6, 03 2013. URL: https://doi.org/10.1371/journal.pbio.1001499, doi:10.1371/journal.pbio.1001499.
NDZ+18: David Norris, Ulrich Dirnagl, Michael J. Zigmond, Katherine Thompson-Peer, and Tracy T. Chow. Health tips for research groups. Nature, 557(7705):302–304, May 2018. URL: https://doi.org/10.1038/d41586-018-05146-5, doi:10.1038/d41586-018-05146-5.
OtU13: Corporate. Directorate-General for Internal Policies Of the Union. Legal aspects of free and open source software : compilation of briefing notes. Publications Office of the European Union, Dec 2013. ISBN 978-92-823-4570-2. URL: https://op.europa.eu/en/publication-detail/-/publication/9875c278-5510-4091-b14a-3e8282cb73a4.
Ost90: Elinor Ostrom. Governing the Commons: The Evolution of Institutions for Collective Action. Cambridge University Press, Cambridge, England, UK, November 1990. ISBN 978-0-52137101-8. doi:10.1017/CBO9780511807763.
Ost05: Elinor Ostrom. Understanding Institutional Diversity / E. Ostrom. Princeton, NJ, January 2005. URL: https://www.researchgate.net/publication/50209015_Understanding_Institutional_Diversity_E_Ostrom.
PNM24: Varad Pande and Keyzom Ngodup Massally. How digital public goods could tackle big global dilemmas. June 2024. [Online; accessed 7. Jun. 2024]. URL: https://www.weforum.org/agenda/2022/05/digital-public-goods-open-source-technology-ecosystem.
PAB+22: Alexandra C. Pike, Kathryn E. Atherton, Yannik Bauer, Ben M. Crittenden, Freek van Ede, Sam Hall-McMaster, Alexander H. von Lautz, Paul S. Muhle-Karbe, Alexandra M. Murray, Nicholas E. Myers, Frida Printzlau, Ilenia Salaris, Eelke Spaak, Lev Tankelevitch, Darinka Trubutschek, Dante Wasmuht, and MaryAnn P. Noonan. 10 simple rules for a supportive lab environment. Journal of Cognitive Neuroscience, 35(1):44–48, December 2022. URL: https://doi.org/10.1162/jocn_a_01928, doi:10.1162/jocn_a_01928.
Ril22: Matthias C. Rillig. Ten simple rules for how you can help make your lab a better place as a graduate student or postdoc. PLOS Computational Biology, 18(12):e1010673, December 2022. URL: https://doi.org/10.1371/journal.pcbi.1010673, doi:10.1371/journal.pcbi.1010673.
RHS19: Jeffrey N. Rouder, Julia M. Haaf, and Hope K. Snyder. Minimizing mistakes in psychological science. Advances in Methods and Practices in Psychological Science, 2(1):3–11, January 2019. URL: https://doi.org/10.1177/2515245918801915, doi:10.1177/2515245918801915.
RGBMP22: Nidia Ruedas-Gracia, Crystal M. Botham, Amber R. Moore, and Courtney Pena. Ten simple rules for creating a sense of belonging in your research group. PLOS Computational Biology, 18(12):e1010688, December 2022. URL: https://doi.org/10.1371/journal.pcbi.1010688, doi:10.1371/journal.pcbi.1010688.
SJB+19: Salome Scholtens, Mijke Jetten, Jasmin Böhmer, Christine Staiger, Inge Slouwerhof, Marije van der Geest, and Celia W.G. van Gelder. Final report: Towards FAIR data steward as profession for the lifesciences. Report of a ZonMw funded collaborative approach built on existing expertise. October 2019. URL: https://doi.org/10.5281/zenodo.3474789, doi:10.5281/zenodo.3474789.
Sha20: Malvika Sharan. Open communities and promoting a culture of collaboration. Zenodo, Apr 2020. doi:10.5281/zenodo.3745008.
SOML22: Balint Stewart, Emily Oliver, and Louise McGrath-Lone. What is ‘research-ready’ data? 2022. URL: https://www.adruk.org/fileadmin/uploads/adruk/Documents/What_is_research_ready_data__A_roundtable_report_June_2022.pdf.
SWZ12: Xiaoxun Sun, Hua Wang, and Yanchun Zhang. On the identity anonymization of high-dimensional rating data. In Concurrency Computation Practice and Experience, volume 24, 1108–1122. John Wiley & Sons, Ltd, July 2012. doi:10.1002/cpe.1724.
Tea20: Data Study Group Team. Data study group final report - roche. 2020. URL: https://www.turing.ac.uk/news/publications/data-study-group-final-report-roche, doi:http://doi.org/10.5281/zenodo.3876989.
TWMT23: Benjamin C. Tendler, Maddie Welland, Karla L. Miller, and The WIN Handbook Team. Research culture: why every lab needs a handbook. eLife, 2023. URL: https://doi.org/10.7554/eLife.88853, doi:10.7554/eLife.88853.
TS09: Richard H. Thaler and Cass R. Sunstein. Nudge. February 2009. [Online; accessed 5. May 2021]. URL: https://www.penguinrandomhouse.com/books/304634/nudge-by-richard-h-thaler-and-cass-r-sunstein.
TFR20: Amirsina Torfi, Edward A. Fox, and Chandan K. Reddy. Differentially Private Synthetic Medical Data Generation using Convolutional GANs. arXiv:2012.11774 [cs], December 2020. arXiv:2012.11774.
TKM+16: Alexander C. Tsai, Brandon A. Kohrt, Lynn T. Matthews, Theresa S. Betancourt, Jooyoung K. Lee, Andrew V. Papachristos, Sheri D. Weiser, Marian Dworkin, Shari L.Petre, and Greg Wilson. Promises and pitfalls of data sharing in qualitative research. Social Science & Medicine, pages 191–198, July 2016. URL: http://dx.doi.org/10.1016/j.socscimed.2016.08.004, doi:10.1016/j.socscimed.2016.08.004.
TAAG+18: Ayesha I. T. Tulloch, Nancy Auerbach, Stephanie Avery-Gomm, Elisa Bayraktarov, Nathalie Butt, Chris R. Dickman, Glenn Ehmke, Diana O. Fisher, Hedley Grantham, Matthew H. Holden, Tyrone H. Lavery, Nicholas P. Leseberg, Miles Nicholls, James O’Connor, Leslie Roberson, Anita K. Smyth, Zoe Stone, Vivitskaia Tulloch, Eren Turak, Glenda M. Wardle, and James E. M. Watson. A decision tree for assessing the risks and benefits of publishing biodiversity data. Nature Ecology & Evolution, 2(8):1209–1217, August 2018. URL: https://doi.org/10.1038/s41559-018-0608-1, doi:10.1038/s41559-018-0608-1.
TvdVDT20: Yasemin Turkyilmaz-van der Velden, Nicolas Dintzner, and Marta Teperek. Reproducibility Starts from You Today. Patterns, 1(6):100099, Sep 2020. doi:10.1016/j.patter.2020.100099.
UK23: Health Data Research UK. Involving and engaging patients and the public. 2023. URL: https://www.hdruk.ac.uk/about-us/involving-and-engaging-patients-and-the-public/ (visited on 2023-11-09).
VIR+19: Ingeborg Verheul, Imming, Melanie, Jacquelijn Ringersma, Annemie Mordant, Jan-Lucas van der Ploeg, and Martine Pronk. Data Stewardship on the map: A study of tasks and roles in Dutch research institutes. May 2019. URL: https://doi.org/10.5281/zenodo.2669150, doi:10.5281/zenodo.2669150.
WPA+20: Louise Woodley, Catherine Pratt, Rachael Ainsworth, Eva Amsen, Arne Bakker, Stefanie Butland, Stephanie O Donnell, Naomi Penfold, Allen Pope, Tom Quigley, and Emmy Tsang. Using virtual events to facilitate community building: event formats. Zenodo, Jul 2020. doi:10.5281/zenodo.3934385.
YZM+12: Yin Yang, Zhenjie Zhang, Gerome Miklau, Marianne Winslett, and Xiaokui Xiao. Differential privacy in data publication and analysis. In Proceedings of the 2012 ACM SIGMOD International Conference on Management of Data, SIGMOD '12, 601–606. New York, NY, USA, May 2012. Association for Computing Machinery. doi:10.1145/2213836.2213910.
ZLM18: Brian Hu Zhang, Blake Lemoine, and Margaret Mitchell. Mitigating Unwanted Biases with Adversarial Learning. In Proceedings of the 2018 AAAI/ACM Conference on AI, Ethics, and Society, AIES '18, 335–340. New York, NY, USA, December 2018. Association for Computing Machinery. doi:10/gftmfb.
CharlesMSchweikE07: Charles M Schweik and Robert English. Tragedy of the FOSS Commons? Investigating the Institutional Designs of Free/Libre and Open Source Software Projects. Charles M Schweik, April 2007. doi:10.5210/fm.v12i2.1619.
WorldHOrganisation20: World Health Organisation. Events as they happen. Jul 2020. [Online; accessed 7. Jul. 2020]. URL: https://www.who.int/emergencies/diseases/novel-coronavirus-2019/events-as-they-happen.