Bibliography

Bibliography#

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

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BZG+15a: Khalid Belhajjame, Jun Zhao, Daniel Garijo, Matthew Gamble, Kristina Hettne, Raul Palma, Eleni Mina, Oscar Corcho, Jos\ifmmode \acute e\else é\fi Manuel G\ifmmode \acute o\else ó\fi mez-P\ifmmode \acute e\else é\fi rez, Sean Bechhofer, and others. Using a suite of ontologies for preserving workflow-centric research objects. Journal of Web Semantics, 32:16–42, May 2015. doi:10.1016/j.websem.2015.01.003.
BZG+15b: Khalid Belhajjame, Jun Zhao, Daniel Garijo, Matthew Gamble, Kristina Hettne, Raul Palma, Eleni Mina, Oscar Corcho, José Manuel Gómez-Pérez, Sean Bechhofer, Graham Klyne, and Carole Goble. Using a suite of ontologies for preserving workflow-centric research objects. Journal of Web Semantics, 32:16–42, 2015. URL: https://www.sciencedirect.com/science/article/pii/S1570826815000049, doi:https://doi.org/10.1016/j.websem.2015.01.003.
BGMMS21: Emily M. Bender, Timnit Gebru, Angelina McMillan-Major, and Shmargaret Shmitchell. On the dangers of stochastic parrots. In Proceedings of the 2021 ACM Conference on Fairness, Accountability, and Transparency. ACM, March 2021. URL: https://doi.org/10.1145/3442188.3445922, doi:10.1145/3442188.3445922.
Bir21: Abeba Birhane. Algorithmic injustice: a relational ethics approach. Patterns, 2(2):100205, 2021. URL: https://www.sciencedirect.com/science/article/pii/S2666389921000155.
BSorensen15: Carter Bloch and Mads P. Sørensen. The size of research funding: Trends and implications. Sci. Public Policy, 42(1):30–43, Feb 2015. doi:10.1093/scipol/scu019.
BM18: Jérémy Bonvoisin and Robert Mies. Measuring openness in open source hardware with the open-o-meter. Procedia CIRP, 78:388–393, 2018. URL: https://doi.org/10.1016/j.procir.2018.08.306, doi:10.1016/j.procir.2018.08.306.
BSJS09: Elizabeth T. Borer, Eric W. Seabloom, Matthew B. Jones, and Mark Schildhauer. Some simple guidelines for effective data management. The Bulletin of the Ecological Society of America, 2009. URL: https://doi.org/10.1890/0012-9623-90.2.205, doi:10.1890/0012-9623-90.2.205.
BVG22: John Borghi and Ana Van Gulick. Promoting open science through research data management. Harvard Data Science Review, July 2022. URL: https://doi.org/10.1162/99608f92.9497f68e, doi:10.1162/99608f92.9497f68e.
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.
BGLI+19: Giangiacomo Bravo, Francisco Grimaldo, Emilia López-Inesta, Bahar Mehmani, and Flaminio Squazzoni. The effect of publishing peer review reports on referee behavior in five scholarly journals. Nature Communications, 10(322):1–8, January 2019. URL: https://doi.org/10.1038/s41467-018-08250-2, doi:10.1038/s41467-018-08250-2.
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Bri15: Kristin Briney. Data Management for Researchers : Organize, maintain and share your data for research success. Pelagic Publishing, 2015. ISBN 978-1784270117. URL: https://pelagicpublishing.com/products/data-management-for-researchers-briney.
BCG20: Kristin A. Briney, Heather Coates, and Abigail Goben. Foundational practices of research data management. Research Ideas and Outcomes, 2020. URL: https://doi.org/10.3897/rio.6.e56508, doi:10.3897/rio.6.e56508.
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bro17: adrienne maree brown. Emergent Strategy Shaping Change, Changing Worlds. Ak Press, 2017. ISBN 9781849352604. URL: https://www.akpress.org/emergentstrategy.html.
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.
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BCC+21: Erin M. Buchanan, Sarah E. Crain, L. Cunningham, Ari, Hannah R. Johnson, Hannah Stash, Marietta Papadatou-Pastou, and Peder M. Isager. Getting started creating data dictionaries: how to create a shareable data set. Advances in Methods and Practices in Psychological Science, 2021. URL: https://doi.org/10.1177/2515245920928007, doi:10.1177/2515245920928007.
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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.
CRKR19: Evan W. Carr, Andrew Reece, Gabriella Rosen Kellerman, and Alexi Robichaux. The Value of Belonging at Work. Dec 2019. [Online; accessed 19. Nov. 2020]. URL: https://hbr.org/2019/12/the-value-of-belonging-at-work.
Cha21: Elodie Chabrol. Practical tips for scientists using twitter, in A comprehensive guide to science communication. Apr 2021. URL: https://www.hindawi.com/resources/.
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).
CHA+20: Veronika Cheplygina, Felienne Hermans, Casper Albers, Natalia Bielczyk, and Ionica Smeets. Ten simple rules for getting started on Twitter as a scientist. PLOS Computational Biology, 16(2):1–9, 2020. Publisher: Public Library of Science. URL: https://doi.org/10.1371/journal.pcbi.1007513, doi:10.1371/journal.pcbi.1007513.
CHKB+21: Neil P. Chue Hong, Daniel S. Katz, Michelle Barker, Anna-Lena Lamprecht, Carlos Martinez, Fotis E. Psomopoulos, Jen Harrow, Leyla Jael Castro, Morane Gruenpeter, Paula Andrea Martinez, and Tom Honeyman. Fair principles for research software (fair4rs principles). 2021. doi:10.15497/RDA00065.
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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.
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CGK23: Randy Colon, Abigail Goben, and Sebastian Karcher. Actually accessible data: an update and a call to action. Journal of Librarianship and Scholarly Communication, 2023. URL: https://doi.org/10.31274/jlsc.15449, doi:10.31274/jlsc.15449.
CWP18: Nicholas Colvard, Edward Watson, and Hyojin Park. The Impact of Open Educational Resources on Various Student Success Metrics. International Journal of Teaching and Learning in Higher Education, 30(2):262–276, 2018.
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CC20: Sasha Costanza-Chock. Design justice: Community-led practices to build the worlds we need. The MIT Press, 2020. URL: https://design-justice.pubpub.org/.
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Cum20: Tucker Cummings. Does the Pomodoro Technique Work for Your Productivity? Apr 2020. URL: https://www.lifehack.org/articles/productivity/the-pomodoro-technique-is-it-right-for-you.html.
DignazioK20: Catherine D'ignazio and Lauren F Klein. Data feminism. MIT press, 2020. URL: https://mitpress.mit.edu/books/data-feminism.
DRS+24: J. Damerow, N. Raia, V. Stanley, N. Byers, S. Choe, R. Edmunds, J. Kunze, K. Lehnert, M. McIntyre-Redden, C. Mungall, D. O'Ryan, C. Parker, E. Plomp, S. Richard, D. Vieglais, E. Wood-Charlson, ESIP Physical Samples Curation Cluster, and A. Thomer. A scientific author guide for publishing open research using physical samples. 2024. URL: https://doi.org/10.6084/m9.figshare.24669057.v1, doi:10.6084/m9.figshare.24669057.v1.
DSKW20: Koenraad De Smedt, Dimitris Koureas, and Peter Wittenburg. Fair digital objects for science: from data pieces to actionable knowledge units. Publications, 2020. URL: https://www.mdpi.com/2304-6775/8/2/21, doi:10.3390/publications8020021.
dVWA+14: Rob B. M. de Vries, Kimberley E. Wever, Marc T. Avey, Martin L. Stephens, Emily S. Sena, and Marlies Leenaars. The Usefulness of Systematic Reviews of Animal Experiments for the Design of Preclinical and Clinical Studies. ILAR J., 55(3):427–437, Dec 2014. doi:10.1093/ilar/ilu043.
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DT21: Patrick Dunleavy and Jane Tinkler. Maximizing the Impacts of Academic Research. Red Globe Press: London, Jan 2021. URL: https://www.amazon.co.uk/dp/B08KZLWB44/ref=dp-kindle-redirect?_encoding=UTF8&btkr=1.
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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.
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fDCP21: Centers for Disease Control and Prevention. The u.s. public health service syphilis study at tuskegee timeline. 2021. URL: https://www.cdc.gov/tuskegee/timeline.htm.
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).
Fox21: Charles W. Fox. Which peer reviewers voluntarily reveal their identity to authors? insights into the consequences of open-identities peer review. Proceedings Roayl Society B, 288:20211399, January 2021. URL: https://doi.org/10.1098/rspb.2021.1399, doi:10.1098/rspb.2021.1399.
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FMB+22: Brian Freeland, Eanna McCarthy, Rengesh Balakrishnan, Samantha Fahy, Adam Boland, Keith D. Rochfort, Michal Dabros, Roger Marti, Susan M. Kelleher, and Jennifer Gaughran. A review of polylactic acid as a replacement material for single-use laboratory components. Materials, 15(9):2989, April 2022. URL: https://doi.org/10.3390/ma15092989, doi:10.3390/ma15092989.
FC18: Juliana Freire and Fernando Seabra Chirigati. Provenance and the different flavors of reproducibility. IEEE Data Eng. Bull., 41(1):15–26, 2018. URL: http://sites.computer.org/debull/A18mar/p15.pdf.
FK18: Siiri Fuchs and Mari Elisa Kuusniemi. Making a research project understandable - Guide for data documentation. Zenodo, Dec 2018. doi:10.5281/zenodo.1914401.
GBB+20: Leyla Garcia, Bérénice Batut, Melissa L. Burke, Mateusz Kuzak, Fotis Psomopoulos, Ricardo Arcila, Teresa K. Attwood, Niall Beard, Denise Carvalho-Silva, Alexandros C. Dimopoulos, Victoria Dominguez del Angel, Michel Dumontier, Kim T. Gurwitz, Roland Krause, Peter McQuilton, Loredana Le Pera, Sarah L. Morgan, Päivi Rauste, Allegra Via, Pascal Kahlem, Gabriella Rustici, Celia W. G. van Gelder, and Patricia M. Palagi. Ten simple rules for making training materials fair. PLOS Computational Biology, 16(5):1–9, 05 2020. URL: https://doi.org/10.1371/journal.pcbi.1007854, doi:10.1371/journal.pcbi.1007854.
GSGPP+19: Andres Garcia-Silva, Jose Manuel Gomez-Perez, Raul Palma, Marcin Krystek, Simone Mantovani, Federica Foglini, Valentina Grande, Francesco De Leo, Stefano Salvi, Elisa Trasatti, Vito Romaniello, Mirko Albani, Cristiano Silvagni, Rosemarie Leone, Fulvio Marelli, Sergio Albani, Michele Lazzarini, Hazel J. Napier, Helen M. Glaves, Timothy Aldridge, Charles Meertens, Fran Boler, Henry W. Loescher, Christine Laney, Melissa A. Genazzio, Daniel Crawl, and Ilkay Altintas. Enabling fair research in earth science through research objects. Future Generation Computer Systems, 98:550–564, 2019. URL: https://www.sciencedirect.com/science/article/pii/S0167739X18314638, doi:https://doi.org/10.1016/j.future.2019.03.046.
GMV+18: Timnit Gebru, Jamie Morgenstern, Briana Vecchione, Jennifer Wortman Vaughan, Hanna Wallach, Hal Daumé III, and Kate Crawford. Datasheets for datasets. arXiv preprint arXiv:1803.09010, 2018. URL: https://www.microsoft.com/en-us/research/uploads/prod/2019/01/1803.09010.pdf.
GTL07: Robert Gentleman and Duncan Temple Lang. Statistical Analyses and Reproducible Research. J. Comput. Graph. Stat., 16(1):1–23, Mar 2007. doi:10.1198/106186007X178663.
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.
GLS+22: Jason Grealey, Loïc Lannelongue, Woei-Yuh Saw, Jonathan Marten, Guillaume Méric, Sergio Ruiz-Carmona, and Michael Inouye. The Carbon Footprint of Bioinformatics. Molecular Biology and Evolution, 02 2022. msac034. URL: https://doi.org/10.1093/molbev/msac034, arXiv:https://academic.oup.com/mbe/article-pdf/39/3/msac034/42692776/msac034.pdf, doi:10.1093/molbev/msac034.
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.
GKM+18: Kathleen Gregory, Siri Jodha Khalsa, K. Michener, William, Fotis E. Psomopoulos, Anita de Waard, and Mingfang Wu. Eleven quick tips for finding research data. PLOS, 2018. URL: https://doi.org/10.1371/journal.pcbi.1006038, doi:10.1371/journal.pcbi.1006038.
GA22: Barbara Groot and Tineke Abma. Ethics framework for citizen science and public and patient participation in research. BMC Medical Ethics, 23(1):23, 2022. URL: https://doi.org/10.1186/s12910-022-00761-4 (visited on 2023-11-07), doi:10.1186/s12910-022-00761-4.
GC22: L. Gumb and W. Cross. In keeping with academic tradition: copyright ownership in higher education and potential implications for open education. Journal of Copyright in Education and Librarianship, 2022. URL: https://doi.org/10.17161/jcel.v5i1.14946, doi:10.17161/jcel.v5i1.14946.
Har88: Donna Haraway. Situated knowledges: the science question in feminism and the privilege of partial perspective. Feminist studies, 14(3):575–599, 1988. URL: https://www.jstor.org/stable/3178066.
Har22: Elizabeth Hare. Writing Alt Text to communicate the meaning in data visualizations, chapter 2. Urban Institute, 2022. URL: https://www.urban.org/sites/default/files/2022-12/Do%20No%20Harm%20Guide%20Centering%20Accessibility%20in%20Data%20Visualization.pdf.
HBL+16: Edmund M. Hart, Pauline Barmby, David LeBauer, Francois Michonneau, Sarah Mount, Patrick Mulrooney, Timothee Poisot, Kara H. Woo, Naupake Zimmerman, and Jeffrey W. Hollister. Ten simple rules for digital data storage. PLoS Comput Biology, 2016. URL: https://doi.org/10.1371/journal.pcbi.1005097, doi:10.1371/journal.pcbi.1005097.
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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.
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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.
HBP+18: Michael A. Heroux, Lorena Barba, Manish Parashar, Victoria Stodden, and Michela Taufer. Toward a Compatible Reproducibility Taxonomy for Computational and Computing Sciences. OSTI.GOV collections, Oct 2018. [Online; accessed 27. May 2020]. URL: https://www.osti.gov/biblio/1481626-toward-compatible-reproducibility-taxonomy-computational-computing-sciences, doi:10.2172/1481626.
HNVS22: Stuart G. Higgins, Akemi A. Nogiwa-Valdez, and Molly M. Stevens. Considerations for implementing electronic laboratory notebooks in an academic research environment. Nature Protocols, 17(2):179–189, 01 2022. URL: http://dx.doi.org/10.1038/s41596-021-00645-8, doi:10.1038/s41596-021-00645-8.
Hil23: Michael Hiltzik. Scientists used to love Twitter. thanks to Elon Musk, they’re giving up on it. The Los Angeles Times, 08 2023. URL: https://www.latimes.com/business/story/2023-08-25/column-scientists-used-to-love-twitter-thanks-to-elon-musk-theyre-giving-up-on-it.
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HPPH+22: Wayne Holmes, Kaska Porayska-Pomsta, Ken Holstein, Emma Sutherland, Toby Baker, Simon Buckingham Shum, Olga C. Santos, Mercedes T. Rodrigo, Mutlu Cukurova, Ig Ibert Bittencourt, and Kenneth R. Koedinger. Ethics of AI in Education: Towards a Community-Wide Framework. Int J Artif Intell Educ, 32(3):504–526, 2022. URL: https://doi.org/10.1007/s40593-021-00239-1 (visited on 2023-11-07), doi:10.1007/s40593-021-00239-1.
Hoo21: Daniel Hook. Feb 2021. URL: https://www.dimensions.ai/blog/open-access-surpasses-subscription-publication-globally-for-the-first-time/.
HRHW22: Serge P.J.M. Horbach, Tony Ross-Hellauer, and Ludo Waltman. Sunlight not shadows: double-anonymized peer review is not the progressive answer to status bias. Open Science Framework Preprint, pages 1–3, October 2022. URL: https://doi.org/10.31219/osf.io/fqb5c, doi:10.31219/osf.io/fqb5c.
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IGH+14: John P. A. Ioannidis, Sander Greenland, Mark A. Hlatky, Muin J. Khoury, Malcolm R. Macleod, David Moher, Kenneth F. Schulz, and Robert Tibshirani. Increasing value and reducing waste in research design, conduct, and analysis. Lancet, 383(9912):166–175, Jan 2014. doi:10.1016/S0140-6736(13)62227-8.
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JM19: Danielle Jacobson and Nida Mustafa. Social identity map: a reflexivity tool for practicing explicit positionality in critical qualitative research. International Journal of Qualitative Methods, 18:1609406919870075, 2019. URL: https://journals.sagepub.com/doi/full/10.1177/1609406919870075.
Jaf18: Anisa JN Jafar. What is positionality and should it be expressed in quantitative studies? Emergency Medicine Journal, 2018. URL: https://emj.bmj.com/content/35/5/323, doi:10.1136/emermed-2017-207158.
JAA+21: Helena Jambor, Alberto Antonietti, Bradly Alicea, Tracy L. Audisio, Susann Auer, Vivek Bhardway, Steven J. Burgess, Iuliia Ferling, Malgorzata A. Gazda, Luke H. Hoeppner, Vinodh Ilangovan, Hung Lo, Mischa Olson, Salem Yousef Mohamed, Sarvenaz Sarabipour, Aalok Varma, Kaivalya Walavalkar, Erin M. Wissink, and Tracey L. Weissgerber. Creating clear and informative image-based figures for scientific publications. PLOS Biology, 2021. URL: https://doi.org/10.1371/journal.pbio.3001161, doi:10.1371/journal.pbio.3001161.
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.
KHSN09: Anelis Kaiser, Sven Haller, Sigrid Schmitz, and Cordula Nitsch. On sex/gender related similarities and differences in fMRI language research. Brain Res. Rev., 61(2):49–59, Oct 2009. doi:10.1016/j.brainresrev.2009.03.005.
KWG+17: Samantha Kanza, Cerys Willoughby, Nicholas Gibbins, Richard Whitby, Jeremy Graham Frey, Jana Erjavec, Klemen Zupancic, Matjaz Hren, and Katarina Kovac. Electronic lab notebooks: can they replace paper? Journal of Cheminformatics, 2017. URL: https://doi.org/10.1186/s13321-017-0221-3, doi:10.1186/s13321-017-0221-3.
KC21: Fani Kelesidou and Elodie Chabrol. A comprehensive guide to science communication. Hindawi Limited, Apr 2021. URL: https://www.hindawi.com/resources/.
KHA+22: Brianne A. Kent, Constance Holman, Emmanuella Amoako, Alberto Antonietti, James M. Azam, Hanne Ballhausen, Yaw Bediako, Anat M. Belasen, Clarissa F. D. Carneiro, Yen-Chung Chen, Ewoud B. Compeer, Chelsea A. C. Connor, Sophia Crüwell, Humberto Debat, Emma Dorris, Hedyeh Ebrahimi, Jeffrey C. Erlich, Florencia Fernández-Chiappe, Felix Fischer, Małgorzata Anna Gazda, Toivo Glatz, Peter Grabitz, Verena Heise, David G. Kent, Hung Lo, Gary McDowell, Devang Mehta, Wolf-Julian Neumann, Kleber Neves, Mark Patterson, Naomi C. Penfold, Sophie K. Piper, Iratxe Puebla, Peter K. Quashie, Carolina Paz Quezada, Julia L. Riley, Jessica L. Rohmann, Shyam Saladi, Benjamin Schwessinger, Bob Siegerink, Paulina Stehlik, Alexandra Tzilivaki, Kate D. L. Umbers, Aalok Varma, Kaivalya Walavalkar, Charlotte M. de Winde, Cecilia Zaza, and Tracey L. Weissgerber. Recommendations for empowering early career researchers to improve research culture and practice. PLoS Biology, 20(7):e3001680, 2022. URL: https://dx.plos.org/10.1371/journal.pbio.3001680, doi:10.1371/journal.pbio.3001680.
KPK+09: Carol Kilkenny, Nick Parsons, Ed Kadyszewski, Michael F. W. Festing, Innes C. Cuthill, Derek Fry, Jane Hutton, and Douglas G. Altman. Survey of the Quality of Experimental Design, Statistical Analysis and Reporting of Research Using Animals. PLoS One, 4(11):e7824, Nov 2009. doi:10.1371/journal.pone.0007824.
Kor06: Stanley G Korenman. Teaching the responsible conduct of research in humans (RCRH), chapter 1. Los Angeles: University of California, 2006. URL: https://ori.hhs.gov/education/products/ucla/default.htm.
Kot12: John P Kotter. Leading Change. Harvard Business Review Press, 2012. ISBN 9781422186435. URL: https://www.kotterinc.com/bookshelf/leading-change/.
KGL+20: Kevin Kunzmann, Michael J Grayling, Kim May Lee, David S Robertson, Kaspar Rufibach, and James Wason. A review of Bayesian perspectives on sample size derivation for confirmatory trials. arXiv preprint arXiv:2006.15715, 2020. URL: https://arxiv.org/abs/2006.15715.
Kuu10: Arja Kuula. Methodological and ethical dilemmas of archiving qualitative data. IASSIST Quarterly, 34(3-4):35, 2010. URL: https://iassistquarterly.com/public/pdfs/iqvol34_35_kuula.pdf.
Kwo18: Roberta Kwok. How to pick an electronic laboratory notebook. Nature, 2018. URL: https://doi.org/10.1038/d41586-018-05895-3, doi:10.1038/d41586-018-05895-3.
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LW20: Jaron Lanier and E. Glen Weyl. Ai is an ideology, not a technology. 2020. URL: https://www.wired.com/story/opinion-ai-is-an-ideology-not-a-technology/.
LAB+23: Loic Lannelongue, Hans-Erik G. Aronson, Alex Bateman, Ewan Birney, Talia Caplan, Martin Juckes, Johanna McEntyre, Andrew D. Morris, Gerry Reilly, and Michael Inouye. Greener principles for environmentally sustainable computational science. Nature Computational Science, 2023. URL: https://doi.org/10.1038/s43588-023-00461-y, doi:10.1038/s43588-023-00461-y.
LGBI21: Loïc Lannelongue, Jason Grealey, Alex Bateman, and Michael Inouye. Ten simple rules to make your computing more environmentally sustainable. PLOS Computational Biology, 17(9):1–8, 09 2021. URL: https://doi.org/10.1371/journal.pcbi.1009324, doi:10.1371/journal.pcbi.1009324.
LGM+21: Ryan J. Larsen, Borjan Gagoski, Sarah U. Morton, Yangming Ou, Rutvi Vyas, P. Ellen Litt, Jonathanand Grant, and Bradley P. Sutton. Dataset for "quantification of magnetic resonance spectroscopy data using a combined reference: application in typically developing infants. 2021. URL: https://doi.org/10.13012/B2IDB-3548139_V1, doi:10.13012/B2IDB-3548139_V1.
LTCB23: Logan B. Leak, Janina Tamborski, Antony Commissaris, and Jennifer A.N. Brophy. Forging a path toward a more sustainable laboratory. Trends in Biochemical Sciences, 48(1):5–8, January 2023. URL: https://doi.org/10.1016/j.tibs.2022.09.001, doi:10.1016/j.tibs.2022.09.001.
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.
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Li23: C. Li. Friends don't let friends make bad graphs. 2023. URL: cxli233/FriendsDontLetFriends, doi:10.5281/zenodo.7097522.
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.
LCD+20: Dawei Lin, Jonathan Crabtree, Ingrid Dillo, Robert R. Downs, Rorie Edmunds, David Giaretta, Marisa De Giusti, Herve L'Hours, Wim Hugo, Reyna Jenkyns, Varsha Khodiya, Maryann E. Martone, Mustapha Mokrane, Vivek Navale, Jonathan Petters, Barbara Sierman, Dina V. Sokolova, Martina Stockhause, and John Westbrook. The trust principles for digital repositories. Scientific Data, 2020. URL: https://doi.org/10.1038/s41597-020-0486-7, doi:10.1038/s41597-020-0486-7.
Low16: Derek Lowe. A field guide to authorship fraud. Science, 2016. URL: https://www.science.org/content/blog-post/field-guide-authorship-fraud.
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.
MO16: Adam Marcus and Ivan Oransky. Why fake data when you can fake a scientist? Nautilus, 2016. URL: https://nautil.us/why-fake-data-when-you-can-fake-a-scientist-236220/.
MO18: Adam Marcus and Ivan Oransky. The data thugs. Science, 359:730–732, 2018. URL: https://www.science.org/doi/full/10.1126/science.359.6377.730.
Mar15: Florian Markowetz. Five selfish reasons to work reproducibly. Genome Biol., 16(1):1–4, Dec 2015. doi:10.1186/s13059-015-0850-7.
MBM18: Ben Marwick, Carl Boettiger, and Lincoln Mullen. Packaging data analytical work reproducibly using R (and friends). PeerJ Preprints, Mar 2018. doi:10.7287/peerj.preprints.3192v2.
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McI88: Peggy McIntosh. White privilege: unpacking the invisible knapsack. 1988. URL: https://admin.artsci.washington.edu/sites/adming/files/unpacking-invisible-knapsack.pdf.
MBB+16: Erin C. McKiernan, Philip E. Bourne, C. Titus Brown, Stuart Buck, Amye Kenall, Jennifer Lin, Damon McDougall, Brian A. Nosek, Karthik Ram, Courtney K. Soderberg, Jeffrey R. Spies, Kaitlin Thaney, Andrew Updegrove, Kara H. Woo, and Tal Yarkoni. Point of View: How open science helps researchers succeed. eLife, Jul 2016. doi:10.7554/eLife.16800.
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.
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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.
NCL+20: Myura Nagendran, Yang Chen, Christopher A. Lovejoy, Anthony C. Gordon, Matthieu Komorowski, Hugh Harvey, Eric J. Topol, John P. A. Ioannidis, Gary S. Collins, and Mahiben Maruthappu. Artificial intelligence versus clinicians: systematic review of design, reporting standards, and claims of deep learning studies. BMJ, 368:m689, Mar 2020. doi:10.1136/bmj.m689.
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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.
NKP+17: Daniel Nuest, Markus Konkol, Edzer Pebesma, Christian Kray, Marc Schutzeichel, Holger Przibytzin, and Joerg Lorenz. Opening the publication process with executable research compendia. D-Lib Magazine, Jan 2017. URL: https://doi.org/10.1045/january2017-nuest, doi:10.1045/january2017-nuest.
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Pan21: Michaela Panter. Credit where credit is due: best practices for authroship attribution. 2021. [Online; accessed 11. Aug. 2021]. URL: https://www.aje.com/en/arc/ethics-manuscript-authorship/.
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.
PPL+18: H. Piwowar, J. Priem, V. Lariviere, J.P. Alperin, L. Matthias, B. Norlander, A. Farley, J. West, and S Haustein. The state of OA: a large-scale analysis of the prevalence and impact of Open Access articles. PeerJ, 6:e4375, Feb 2018. doi:10.7717/peerj.4375.
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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.
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RHDS17: Tony Ross-Hellauer, Arvin Deppe, and Birgit Schmidt. Survey on open peer review: attitudes and experience amongst editors, authors and reviewers. PLoS ONE, 12(12):1–28, December 2017. URL: https://doi.org/10.1371/journal.pone.0189311, doi:10.1371/journal.pone.0189311.
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.
SVvWB22: Richard Schoonhoven, Bram Veenboer, Ben van Werkhoven, and Kees Joost Batenburg. Going green: optimizing gpus for energy efficiency through model-steered auto-tuning. 2022. arXiv:2211.07260.
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SDSE20: Roy Schwartz, Jesse Dodge, Noah A. Smith, and Oren Etzioni. Green ai. Commun. ACM, 63(12):54–63, nov 2020. URL: https://doi.org/10.1145/3381831, doi:10.1145/3381831.
Sha20: Malvika Sharan. Open communities and promoting a culture of collaboration. Zenodo, Apr 2020. doi:10.5281/zenodo.3745008.
Sha21: Malvika Sharan. Can we reimagine FAIR for building communities in open science? Zenodo, Sep 2021. doi:10.5281/zenodo.5518163.
SFR20: Matthias Stachowski, Alexander Fiebig, and Thomas Rauber. Autotuning based on frequency scaling toward energy efficiency of blockchain algorithms on graphics processing units. The Journal of Supercomputing, 77(1):263–291, 2020. doi:10.1007/s11227-020-03263-5.
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.
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SBH+18: David Stuart, Grace Baynes, Iain Hrynaszkiewicz, Katie Allin, Dan Penny, Mithu Lucraft, and Mathias Astell. Whitepaper: Practical challenges for researchers in data sharing. figshare, Mar 2018. doi:10.6084/m9.figshare.5975011.v1.
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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.
TWJ+16: Jonathan P. Tennant, Francois Waldner, Damien C. Jacques, Paola Masuzzo, Lauren B. Collister, and Chris. H. J. Hartgerink. The academic, economic and societal impacts of Open Access: an evidence-based review. F1000Research, 5:632, Sep 2016. doi:10.12688/f1000research.8460.3.
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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.
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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.
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