YOLO‐Behaviour: A simple, flexible framework to automatically quantify animal behaviours from videos

Authors: Alex Hoi Hang Chan, Prasetia Putra, Harald Schupp, Johanna Köchling, Jana Straßheim, Britta Renner, Julia Schroeder, William D. Pearse, Shinichi Nakagawa, Terry Burke, Michael Griesser, Andrea Meltzer, Saverio Lubrano, Fumihiro Kano

Source: Methods in Ecology and Evolution, Vol 16, Iss 4, Pp 760-774 (2025)

Subject Terms: animal behaviour, behavioural recognition, computer vision, machine learning, Ecology, QH540-549.5, Evolution, QH359-425

File Description: electronic resource

Relation: https://doaj.org/toc/2041-210X

Access URL: https://doaj.org/article/6b6ce675dbc746cc8c52299080d0c8de

Development of a novel rat long-bone nonunion model and efficacy evaluation of a prostaglandin EP4 selective agonist (AKDS001) combined with iliac bone grafting

Authors: Daisuke Tateiwa, Masahiro Nishida, Joe Kodama, Hiromasa Hirai, Shinichi Nakagawa, Yuichiro Ukon, Kazuhiro Takeyama, Natsumi Yamamori, Kyoko Hirano, Masato Ikuta, Takayuki Kitahara, Takuya Furuichi, Masayuki Bun, Seiji Okada, Takashi Kaito

Source: Bone & Joint Research, Vol 14, Iss 3, Pp 166-175 (2025)

Subject Terms: nonunion, prostaglandin ep4 selective agonist, bone morphogenetic protein, iliac bone grafting, prostaglandin, bone nonunion, agonists, rat model, bone grafting, pseudoarthrosis, fracture sites, kirschner wire (k-wire), μct images, bone morphogenetic protein-2, Diseases of the musculoskeletal system, RC925-935

File Description: electronic resource

Relation: https://doaj.org/toc/2046-3758

Access URL: https://doaj.org/article/e6f6860713e54e6bb1b335e498603358

Evidence of the impacts of pharmaceuticals on aquatic animal behaviour (EIPAAB): a systematic map and open access database

Authors: Jake M. Martin, Marcus Michelangeli, Michael G. Bertram, Paul J. Blanchfield, Jack A. Brand, Tomas Brodin, Bryan W. Brooks, Daniel Cerveny, Kate N. Fergusson, Malgorzata Lagisz, Lea M. Lovin, Isaac Y. Ligocki, Shinichi Nakagawa, Shiho Ozeki, Natalia Sandoval-Herrera, Kendall R. Scarlett, Josefin Sundin, Hung Tan, Eli S. J. Thoré, Bob B. M. Wong, Erin S. McCallum

Source: Environmental Evidence, Vol 14, Iss 1, Pp 1-24 (2025)

Subject Terms: Ecotoxicology, Evidence synthesis, Fitness, Medicine, Neurotoxicology, Psychoactive, Environmental sciences, GE1-350

File Description: electronic resource

Relation: https://doaj.org/toc/2047-2382

Access URL: https://doaj.org/article/60cd1122a8034f2ba955a5c5f55e1ad4

Unified total body CT image with multiple organ specific windowings: validating improved diagnostic accuracy and speed in trauma cases

Authors: Naoki Okada, Shusuke Inoue, Chang Liu, Sho Mitarai, Shinichi Nakagawa, Yohsuke Matsuzawa, Satoshi Fujimi, Goshiro Yamamoto, Tomohiro Kuroda

Source: Scientific Reports, Vol 15, Iss 1, Pp 1-9 (2025)

Subject Terms: Diagnostic imaging, Deep learning model, Automated windowing, Trauma, Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/2045-2322

Access URL: https://doaj.org/article/309482cc6e5a4d80bc1c4789bcf36edf

Same data, different analysts: variation in effect sizes due to analytical decisions in ecology and evolutionary biology

Authors: Elliot Gould, Hannah S. Fraser, Timothy H. Parker, Shinichi Nakagawa, Simon C. Griffith, Peter A. Vesk, Fiona Fidler, Daniel G. Hamilton, Robin N. Abbey-Lee, Jessica K. Abbott, Luis A. Aguirre, Carles Alcaraz, Irith Aloni, Drew Altschul, Kunal Arekar, Jeff W. Atkins, Joe Atkinson, Christopher M. Baker, Meghan Barrett, Kristian Bell, Suleiman Kehinde Bello, Iván Beltrán, Bernd J. Berauer, Michael Grant Bertram, Peter D. Billman, Charlie K. Blake, Shannon Blake, Louis Bliard, Andrea Bonisoli-Alquati, Timothée Bonnet, Camille Nina Marion Bordes, Aneesh P. H. Bose, Thomas Botterill-James, Melissa Anna Boyd, Sarah A. Boyle, Tom Bradfer-Lawrence, Jennifer Bradham, Jack A. Brand, Martin I. Brengdahl, Martin Bulla, Luc Bussière, Ettore Camerlenghi, Sara E. Campbell, Leonardo L. F. Campos, Anthony Caravaggi, Pedro Cardoso, Charles J. W. Carroll, Therese A. Catanach, Xuan Chen, Heung Ying Janet Chik, Emily Sarah Choy, Alec Philip Christie, Angela Chuang, Amanda J. Chunco, Bethany L. Clark, Andrea Contina, Garth A. Covernton, Murray P. Cox, Kimberly A. Cressman, Marco Crotti, Connor Davidson Crouch, Pietro B. D’Amelio, Alexandra Allison de Sousa, Timm Fabian Döbert, Ralph Dobler, Adam J. Dobson, Tim S. Doherty, Szymon Marian Drobniak, Alexandra Grace Duffy, Alison B. Duncan, Robert P. Dunn, Jamie Dunning, Trishna Dutta, Luke Eberhart-Hertel, Jared Alan Elmore, Mahmoud Medhat Elsherif, Holly M. English, David C. Ensminger, Ulrich Rainer Ernst, Stephen M. Ferguson, Esteban Fernandez-Juricic, Thalita Ferreira-Arruda, John Fieberg, Elizabeth A. Finch, Evan A. Fiorenza, David N. Fisher, Amélie Fontaine, Wolfgang Forstmeier, Yoan Fourcade, Graham S. Frank, Cathryn A. Freund, Eduardo Fuentes-Lillo, Sara L. Gandy, Dustin G. Gannon, Ana I. García-Cervigón, Alexis C. Garretson, Xuezhen Ge, William L. Geary, Charly Géron, Marc Gilles, Antje Girndt, Daniel Gliksman, Harrison B. Goldspiel, Dylan G. E. Gomes, Megan Kate Good, Sarah C. Goslee, J. Stephen Gosnell, Eliza M. Grames, Paolo Gratton, Nicholas M. Grebe, Skye M. Greenler, Maaike Griffioen, Daniel M. Griffith, Frances J. Griffith, Jake J. Grossman, Ali Güncan, Stef Haesen, James G. Hagan, Heather A. Hager, Jonathan Philo Harris, Natasha Dean Harrison, Sarah Syedia Hasnain, Justin Chase Havird, Andrew J. Heaton, María Laura Herrera-Chaustre, Tanner J. Howard, Bin-Yan Hsu, Fabiola Iannarilli, Esperanza C. Iranzo, Erik N. K. Iverson, Saheed Olaide Jimoh, Douglas H. Johnson, Martin Johnsson, Jesse Jorna, Tommaso Jucker, Martin Jung, Ineta Kačergytė, Oliver Kaltz, Alison Ke, Clint D. Kelly, Katharine Keogan, Friedrich Wolfgang Keppeler, Alexander K. Killion, Dongmin Kim, David P. Kochan, Peter Korsten, Shan Kothari, Jonas Kuppler, Jillian M. Kusch, Malgorzata Lagisz, Kristen Marianne Lalla, Daniel J. Larkin, Courtney L. Larson, Katherine S. Lauck, M. Elise Lauterbur, Alan Law, Don-Jean Léandri-Breton, Jonas J. Lembrechts, Kiara L’Herpiniere, Eva J. P. Lievens, Daniela Oliveira de Lima, Shane Lindsay, Martin Luquet, Ross MacLeod, Kirsty H. Macphie, Kit Magellan, Magdalena M. Mair, Lisa E. Malm, Stefano Mammola, Caitlin P. Mandeville, Michael Manhart, Laura Milena Manrique-Garzon, Elina Mäntylä, Philippe Marchand, Benjamin Michael Marshall, Charles A. Martin, Dominic Andreas Martin, Jake Mitchell Martin, April Robin Martinig, Erin S. McCallum, Mark McCauley, Sabrina M. McNew, Scott J. Meiners, Thomas Merkling, Marcus Michelangeli, Maria Moiron, Bruno Moreira, Jennifer Mortensen, Benjamin Mos, Taofeek Olatunbosun Muraina, Penelope Wrenn Murphy, Luca Nelli, Petri Niemelä, Josh Nightingale, Gustav Nilsonne, Sergio Nolazco, Sabine S. Nooten, Jessie Lanterman Novotny, Agnes Birgitta Olin, Chris L. Organ, Kate L. Ostevik, Facundo Xavier Palacio, Matthieu Paquet, Darren James Parker, David J. Pascall, Valerie J. Pasquarella, John Harold Paterson, Ana Payo-Payo, Karen Marie Pedersen, Grégoire Perez, Kayla I. Perry, Patrice Pottier, Michael J. Proulx, Raphaël Proulx, Jessica L Pruett, Veronarindra Ramananjato, Finaritra Tolotra Randimbiarison, Onja H. Razafindratsima, Diana J. Rennison, Federico Riva, Sepand Riyahi, Michael James Roast, Felipe Pereira Rocha, Dominique G. Roche, Cristian Román-Palacios, Michael S. Rosenberg, Jessica Ross, Freya E. Rowland, Deusdedith Rugemalila, Avery L. Russell, Suvi Ruuskanen, Patrick Saccone, Asaf Sadeh, Stephen M. Salazar, Kris Sales, Pablo Salmón, Alfredo Sánchez-Tójar, Leticia Pereira Santos, Francesca Santostefano, Hayden T. Schilling, Marcus Schmidt, Tim Schmoll, Adam C. Schneider, Allie E. Schrock, Julia Schroeder, Nicolas Schtickzelle, Nick L. Schultz, Drew A. Scott, Michael Peter Scroggie, Julie Teresa Shapiro, Nitika Sharma, Caroline L. Shearer, Diego Simón, Michael I. Sitvarin, Fabrício Luiz Skupien, Heather Lea Slinn, Grania Polly Smith, Jeremy A. Smith, Rahel Sollmann, Kaitlin Stack Whitney, Shannon Michael Still, Erica F. Stuber, Guy F. Sutton, Ben Swallow, Conor Claverie Taff, Elina Takola, Andrew J. Tanentzap, Rocío Tarjuelo, Richard J. Telford, Christopher J. Thawley, Hugo Thierry, Jacqueline Thomson, Svenja Tidau, Emily M. Tompkins, Claire Marie Tortorelli, Andrew Trlica, Biz R. Turnell, Lara Urban, Stijn Van de Vondel, Jessica Eva Megan van der Wal, Jens Van Eeckhoven, Francis van Oordt, K. Michelle Vanderwel, Mark C. Vanderwel, Karen J. Vanderwolf, Juliana Vélez, Diana Carolina Vergara-Florez, Brian C. Verrelli, Marcus Vinícius Vieira, Nora Villamil, Valerio Vitali, Julien Vollering, Jeffrey Walker, Xanthe J. Walker, Jonathan A. Walter, Pawel Waryszak, Ryan J. Weaver, Ronja E. M. Wedegärtner, Daniel L. Weller, Shannon Whelan, Rachel Louise White, David William Wolfson, Andrew Wood, Scott W. Yanco, Jian D. L. Yen, Casey Youngflesh, Giacomo Zilio, Cédric Zimmer, Gregory Mark Zimmerman, Rachel A. Zitomer

Source: BMC Biology, Vol 23, Iss 1, Pp 1-36 (2025)

Subject Terms: Analytical heterogeneity, Metascience, Many-analyst, Replication crisis, Reproducibility, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://doaj.org/toc/1741-7007

Access URL: https://doaj.org/article/de5863fbbfd4411f8ee09e352a483284

Poor hypotheses and research waste in biology: learning from a theory crisis in psychology

Authors: Shinichi Nakagawa, David W. Armitage, Tom Froese, Yefeng Yang, Malgorzata Lagisz

Source: BMC Biology, Vol 23, Iss 1, Pp 1-13 (2025)

Subject Terms: Questionable research practice, Replication crisis, Credibility revolution, Team science, SORTEE, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://doaj.org/toc/1741-7007

Access URL: https://doaj.org/article/d6ca6a4d5e604d6d96208b38adc94f8c

Sex‐Specific Effects of Social Environment on Behaviour and Their Correlations in Drosophila melanogaster

Authors: Erin L. Macartney, Samantha Burke, Patrice Pottier, Zina Hamoudi, Chloe Hart, Radiah Ahmed, Yong Qi Lin, G. Gregory Neely, Szymon M. Drobniak, Shinichi Nakagawa

Source: Ecology and Evolution, Vol 15, Iss 4, Pp n/a-n/a (2025)

Subject Terms: behavioural plasticity, behavioural syndrome, environmental enrichment, insect, mating, sex differences, Ecology, QH540-549.5

File Description: electronic resource

Relation: https://doaj.org/toc/2045-7758

Access URL: https://doaj.org/article/3ab6d18995b34ad181a5dfd667a3547d

What is the evidence for the impact of ocean warming on subtropical and temperate corals and coral reefs? A systematic map

Authors: Man Lim Ho, Malgorzata Lagisz, Shinichi Nakagawa, Sarah Perkins-Kirkpatrick, Paige Sawyers, Charlotte Page, Bill Leggat, Troy Gaston, Alistair J. Hobday, Zoe Richards, Tracy Ainsworth

Source: Environmental Evidence, Vol 13, Iss 1, Pp 1-28 (2024)

Subject Terms: Coral, Coral reefs, Scleractinian, High latitude, Marginal, Ocean warming, Environmental sciences, GE1-350

File Description: electronic resource

Relation: https://doaj.org/toc/2047-2382

Access URL: https://doaj.org/article/e3bf4543523a48c8bf36d59ce35957e3

Transparent reporting items for simulation studies evaluating statistical methods: Foundations for reproducibility and reliability

Authors: Coralie Williams, Yefeng Yang, Malgorzata Lagisz, Kyle Morrison, Lorenzo Ricolfi, David I. Warton, Shinichi Nakagawa

Source: Methods in Ecology and Evolution, Vol 15, Iss 11, Pp 1926-1939 (2024)

Subject Terms: meta‐research, Monte Carlo simulation, replicability, reporting checklist, reporting quality, reproducibility, Ecology, QH540-549.5, Evolution, QH359-425

File Description: electronic resource

Relation: https://doaj.org/toc/2041-210X

Access URL: https://doaj.org/article/b40427ef995b4d9ba023e06e587204e5

Robust point and variance estimation for meta‐analyses with selective reporting and dependent effect sizes

Authors: Yefeng Yang, Malgorzata Lagisz, Coralie Williams, Daniel W. A. Noble, Jinming Pan, Shinichi Nakagawa

Source: Methods in Ecology and Evolution, Vol 15, Iss 9, Pp 1593-1610 (2024)

Subject Terms: effect size, evidence synthesis, meta research, meta‐analysis, mixed‐effects model, publication bias, Ecology, QH540-549.5, Evolution, QH359-425

File Description: electronic resource

Relation: https://doaj.org/toc/2041-210X

Access URL: https://doaj.org/article/458ac4d5b1ad4014bb2fef554c709940

Long non-coding RNA Malat1 fine-tunes bone homeostasis and repair by orchestrating cellular crosstalk and β-catenin-OPG/Jagged1 pathway

Authors: Yongli Qin, Jumpei Shirakawa, Cheng Xu, Ruge Chen, Xu Yang, Courtney Ng, Shinichi Nakano, Mahmoud Elguindy, Zhonghao Deng, Kannanganattu V Prasanth, Moritz F Eissmann, Shinichi Nakagawa, William M Ricci, Baohong Zhao

Source: eLife, Vol 13 (2024)

Subject Terms: bone, long non-coding RNA, Malat1, osteoblasts, regeneration, osteoclasts, Medicine, Science, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://elifesciences.org/articles/98900; https://doaj.org/toc/2050-084X

Access URL: https://doaj.org/article/2b50faf1926049d4a39f4615dc287fba

A systematic review and meta-analysis of eyespot anti-predator mechanisms

Authors: Ayumi Mizuno, Malgorzata Lagisz, Pietro Pollo, Yefeng Yang, Masayo Soma, Shinichi Nakagawa

Source: eLife, Vol 13 (2024)

Subject Terms: aves, butterfly, caterpillar, interspecific communication, predator-prey interaction, warning signal, Medicine, Science, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://elifesciences.org/articles/96338; https://doaj.org/toc/2050-084X

Access URL: https://doaj.org/article/2681f89246b14087ad5d81dda33b5914

An evolutionarily distinct Hmgn2 variant influences shape recognition in Medaka Fish

Authors: Shuntaro Inoue, Yume Masaki, Shinichi Nakagawa, Saori Yokoi

Source: Communications Biology, Vol 7, Iss 1, Pp 1-11 (2024)

Subject Terms: Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://doaj.org/toc/2399-3642

Access URL: https://doaj.org/article/80f7db585e754cecb5c8b9e8bdc34847

Air pollution disproportionately impairs beneficial invertebrates: a meta-analysis

Authors: James M. W. Ryalls, Jacob Bishop, Adedayo O. Mofikoya, Lisa M. Bromfield, Shinichi Nakagawa, Robbie D. Girling

Source: Nature Communications, Vol 15, Iss 1, Pp 1-10 (2024)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/089a1119d9744aa996ad3760b956d36a

A systematic review and meta-analysis of unimodal and multimodal predation risk assessment in birds

Authors: Kimberley J. Mathot, Josue David Arteaga-Torres, Anne Besson, Deborah M. Hawkshaw, Natasha Klappstein, Rebekah A. McKinnon, Sheeraja Sridharan, Shinichi Nakagawa

Source: Nature Communications, Vol 15, Iss 1, Pp 1-15 (2024)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/1003c9bd32804c42b45b5389611483d3

Long noncoding RNA Malat1 protects against osteoporosis and bone metastasis

Authors: Yang Zhao, Jingyuan Ning, Hongqi Teng, Yalan Deng, Marisela Sheldon, Lei Shi, Consuelo Martinez, Jie Zhang, Annie Tian, Yutong Sun, Shinichi Nakagawa, Fan Yao, Hai Wang, Li Ma

Source: Nature Communications, Vol 15, Iss 1, Pp 1-20 (2024)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/cf976b347ba44d6d9ec842b88b6bf6c1

Four principles for improved statistical ecology

Authors: Gordana Popovic, Tanya Jane Mason, Szymon Marian Drobniak, Tiago André Marques, Joanne Potts, Rocío Joo, Res Altwegg, Carolyn Claire Isabelle Burns, Michael Andrew McCarthy, Alison Johnston, Shinichi Nakagawa, Louise McMillan, Kadambari Devarajan, Patrick Leo Taggart, Alison Wunderlich, Magdalena M. Mair, Juan Andrés Martínez‐Lanfranco, Malgorzata Lagisz, Patrice Pottier

Source: Methods in Ecology and Evolution, Vol 15, Iss 2, Pp 266-281 (2024)

Subject Terms: HARKing, model assumptions, p‐hacking, pre‐registration, p‐values, questionable research practices, Ecology, QH540-549.5, Evolution, QH359-425

File Description: electronic resource

Relation: https://doaj.org/toc/2041-210X

Access URL: https://doaj.org/article/34314350f79a4ffa95dd5ca7959103ef

Meta-analysis shows no consistent evidence for senescence in ejaculate traits across animals

Authors: Krish Sanghvi, Regina Vega-Trejo, Shinichi Nakagawa, Samuel J. L. Gascoigne, Sheri L. Johnson, Roberto Salguero-Gómez, Tommaso Pizzari, Irem Sepil

Source: Nature Communications, Vol 15, Iss 1, Pp 1-13 (2024)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/763b43995374428796ab9f074f2b4add

A research synthesis of humans, animals, and environmental compartments exposed to PFAS: A systematic evidence map and bibliometric analysis of secondary literature

Authors: Lorenzo Ricolfi, Catharina Vendl, Jennifer Bräunig, Matthew D. Taylor, Daniel Hesselson, G. Gregory Neely, Malgorzata Lagisz, Shinichi Nakagawa

Source: Environment International, Vol 190, Iss , Pp 108860- (2024)

Subject Terms: PFOA, PFOS, Forever chemicals, Systematic review, Health, Ecotoxicology, Environmental sciences, GE1-350

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S016041202400446X; https://doaj.org/toc/0160-4120

Access URL: https://doaj.org/article/eb4faed9fa14400ba5f516171c1eb235

Collaboration and term usage dynamics in agricultural buffer strip research: Research weaving

Authors: Sarah Young, Malgorzata Lagisz, Max W. Callaghan, Shinichi Nakagawa, Neal R. Haddaway

Source: Ecological Solutions and Evidence, Vol 5, Iss 3, Pp n/a-n/a (2024)

Subject Terms: bibliographic coupling, bibliometrics, buffer strips, co‐authorship networks, evidence synthesis, research weaving, Environmental sciences, GE1-350, Ecology, QH540-549.5

File Description: electronic resource

Relation: https://doaj.org/toc/2688-8319

Access URL: https://doaj.org/article/8d068278850a4808b98ce668fac7be53