References

References#

[BALANS17]

Gregorio Alanis-Lobato, Miguel A. Andrade-Navarro, and Martin H. Schaefer. HIPPIE v2.0: enhancing meaningfulness and reliability of protein-protein interaction networks. Nucleic Acids Research, 45(D1):D408–D414, January 2017. URL: https://doi.org/10.1093/nar/gkw985 (visited on 2025-10-24), doi:10.1093/nar/gkw985.

[BLCHW14]

Fu-Jou Lai, Hong-Tsun Chang, Yueh-Min Huang, and Wei-Sheng Wu. A comprehensive performance evaluation on the prediction results of existing cooperative transcription factors identification algorithms. BMC Systems Biology, 8(4):S9, December 2014. URL: https://doi.org/10.1186/1752-0509-8-S4-S9 (visited on 2025-11-11), doi:10.1186/1752-0509-8-S4-S9.

[BORC+21]

Rose Oughtred, Jennifer Rust, Christie Chang, Bobby-Joe Breitkreutz, Chris Stark, Andrew Willems, Lorrie Boucher, Genie Leung, Nadine Kolas, Frederick Zhang, Sonam Dolma, Jasmin Coulombe-Huntington, Andrew Chatr-Aryamontri, Kara Dolinski, and Mike Tyers. The BioGRID database: A comprehensive biomedical resource of curated protein, genetic, and chemical interactions. Protein Science: A Publication of the Protein Society, 30(1):187–200, January 2021. doi:10.1002/pro.3978.

[BSKK+22]

Damian Szklarczyk, Rebecca Kirsch, Mikaela Koutrouli, Katerina Nastou, Farrokh Mehryary, Radja Hachilif, Annika L Gable, Tao Fang, Nadezhda T Doncheva, Sampo Pyysalo, Peer Bork, Lars J Jensen, and Christian von Mering. The STRING database in 2023: protein-protein association networks and functional enrichment analyses for any sequenced genome of interest. Nucleic Acids Research, 51(D1):D638–D646, November 2022. URL: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9825434/ (visited on 2025-04-29), doi:10.1093/nar/gkac1000.

[BTheGOConsortiumAB+23]

The Gene Ontology Consortium, Suzi A Aleksander, James Balhoff, Seth Carbon, J Michael Cherry, Harold J Drabkin, Dustin Ebert, Marc Feuermann, Pascale Gaudet, Nomi L Harris, David P Hill, Raymond Lee, Huaiyu Mi, Sierra Moxon, Christopher J Mungall, Anushya Muruganugan, Tremayne Mushayahama, Paul W Sternberg, Paul D Thomas, Kimberly Van Auken, Jolene Ramsey, Deborah A Siegele, Rex L Chisholm, Petra Fey, Maria Cristina Aspromonte, Maria Victoria Nugnes, Federica Quaglia, Silvio Tosatto, Michelle Giglio, Suvarna Nadendla, Giulia Antonazzo, Helen Attrill, Gil dos Santos, Steven Marygold, Victor Strelets, Christopher J Tabone, Jim Thurmond, Pinglei Zhou, Saadullah H Ahmed, Praoparn Asanitthong, Diana Luna Buitrago, Meltem N Erdol, Matthew C Gage, Mohamed Ali Kadhum, Kan Yan Chloe Li, Miao Long, Aleksandra Michalak, Angeline Pesala, Armalya Pritazahra, Shirin C C Saverimuttu, Renzhi Su, Kate E Thurlow, Ruth C Lovering, Colin Logie, Snezhana Oliferenko, Judith Blake, Karen Christie, Lori Corbani, Mary E Dolan, Harold J Drabkin, David P Hill, Li Ni, Dmitry Sitnikov, Cynthia Smith, Alayne Cuzick, James Seager, Laurel Cooper, Justin Elser, Pankaj Jaiswal, Parul Gupta, Pankaj Jaiswal, Sushma Naithani, Manuel Lera-Ramirez, Kim Rutherford, Valerie Wood, Jeffrey L De Pons, Melinda R Dwinell, G Thomas Hayman, Mary L Kaldunski, Anne E Kwitek, Stanley J F Laulederkind, Marek A Tutaj, Mahima Vedi, Shur-Jen Wang, Peter D’Eustachio, Lucila Aimo, Kristian Axelsen, Alan Bridge, Nevila Hyka-Nouspikel, Anne Morgat, Suzi A Aleksander, J Michael Cherry, Stacia R Engel, Kalpana Karra, Stuart R Miyasato, Robert S Nash, Marek S Skrzypek, Shuai Weng, Edith D Wong, Erika Bakker, Tanya Z Berardini, Leonore Reiser, Andrea Auchincloss, Kristian Axelsen, Ghislaine Argoud-Puy, Marie-Claude Blatter, Emmanuel Boutet, Lionel Breuza, Alan Bridge, Cristina Casals-Casas, Elisabeth Coudert, Anne Estreicher, Maria Livia Famiglietti, Marc Feuermann, Arnaud Gos, Nadine Gruaz-Gumowski, Chantal Hulo, Nevila Hyka-Nouspikel, Florence Jungo, Philippe Le Mercier, Damien Lieberherr, Patrick Masson, Anne Morgat, Ivo Pedruzzi, Lucille Pourcel, Sylvain Poux, Catherine Rivoire, Shyamala Sundaram, Alex Bateman, Emily Bowler-Barnett, Hema Bye-A-Jee, Paul Denny, Alexandr Ignatchenko, Rizwan Ishtiaq, Antonia Lock, Yvonne Lussi, Michele Magrane, Maria J Martin, Sandra Orchard, Pedro Raposo, Elena Speretta, Nidhi Tyagi, Kate Warner, Rossana Zaru, Alexander D Diehl, Raymond Lee, Juancarlos Chan, Stavros Diamantakis, Daniela Raciti, Magdalena Zarowiecki, Malcolm Fisher, Christina James-Zorn, Virgilio Ponferrada, Aaron Zorn, Sridhar Ramachandran, Leyla Ruzicka, and Monte Westerfield. The Gene Ontology knowledgebase in 2023. Genetics, 224(1):iyad031, May 2023. URL: https://doi.org/10.1093/genetics/iyad031 (visited on 2026-02-26), doi:10.1093/genetics/iyad031.