Protocol for predicting the single-cell network-based gene activity landscape during human B cell development by Xin Huang, Xuetong Hou, Yizhen Li, Jun J. Yang, Jiyang Yu

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Protocol to study the impact of breast cancer on colonization resistance of mouse microbiota using network node manipulation by Ana Laura Cano-Argüelles, Alejandra Wu-Chuang, Lourdes Mateos-Hernandez, Lianet Abuin-Denis, Apolline Maitre, Janet Avellanet, Arlem García, Dasha Fuentes, Alejandro Cabezas-Cruz

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Leveraging public AI tools to explore systems biology resources in mathematical modeling by Meera Kannan, Gabrielle Bridgewater, Ming Zhang, Michael L. Blinov

“…npj Systems Biology and Applications…”
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Molecular complexity of quantitative immunity in plants: from QTL mapping to functional and systems biology by Chauveau, Carine, Roby, Dominique

“…Identification of RKS1 protein interactors and complexes was a first step, systems biology and reconstruction of protein networks were then used to decipher the molecular roadmap to the immune responses controlled by RKS1. …”
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The effects of Thymus capitatus essential oil topical application on milk quality: a systems biology approach by Ralph Nehme, Chiara Gini, Elise Vanbergue, Sergine Even, Filippo Biscarini, Sonia Andrés, Lucie Rault, Faustine Noel, Valerie Hardit, Said Bouhallab, David M. Pereira, Riadh Ksouri, Philippe Roussel, Secundino López, Paola Cremonesi, Bianca Castiglioni, Donatella Caruso, Fiorenza Faré, Manuela Fontana, Fabrizio Ceciliani, Latifa Abdennebi-Najar

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Targeting ferroptosis in prostate cancer management: molecular mechanisms, multidisciplinary strategies and translational perspectives by Hubo Yang, Xuefeng Zhang, Zongming Jia, He Wang, Jixiang Wu, Xuedong Wei, Yuhua Huang, Wenying Yan, Yuxin Lin

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Improving neuroendocrine tumor treatments with mathematical modeling: lessons from other endocrine cancers by John Metzcar, Rachael Guenter, Yafei Wang, Kimberly M Baker, Kate E Lines

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Oncogenic PIK3CA corrupts growth factor signaling specificity by Ralitsa R Madsen, Alix Le Marois, Oliwia N Mruk, Margaritis Voliotis, Shaozhen Yin, Jahangir Sufi, Xiao Qin, Salome J Zhao, Julia Gorczynska, Daniele Morelli, Lindsay Davidson, Erik Sahai, Viktor I Korolchuk, Christopher J Tape, Bart Vanhaesebroeck

“…Molecular Systems Biology…”
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A multiplex method for rapidly identifying viral protease inhibitors by Seo Jung Hong, Samuel J Resnick, Sho Iketani, Ji Won Cha, Benjamin Alexander Albert, Christopher T Fazekas, Ching-Wen Chang, Hengrui Liu, Shlomi Dagan, Michael R Abagyan, Pavla Fajtová, Bruce Culbertson, Brooklyn Brace, Eswar R Reddem, Farhad Forouhar, J Fraser Glickman, James M Balkovec, Brent R Stockwell, Lawrence Shapiro, Anthony J O’Donoghue, Yosef Sabo, Joel S Freundlich, David D Ho, Alejandro Chavez

“…Molecular Systems Biology…”
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Author Correction: Systematic protein-protein interaction mapping for clinically relevant human GPCRs by Kate Sokolina, Saranya Kittanakom, Jamie Snider, Max Kotlyar, Pascal Maurice, Jorge Gandía, Abla Benleulmi-Chaachoua, Kenjiro Tadagaki, Atsuro Oishi, Victoria Wong, Ramy H Malty, Viktor Deineko, Hiroyuki Aoki, Shahreen Amin, Zhong Yao, Xavier Morató, David Otasek, Hiroyuki Kobayashi, Javier Menendez, Daniel Auerbach, Stephane Angers, Natasa Pržulj, Michel Bouvier, Mohan Babu, Francisco Ciruela, Ralf Jockers, Igor Jurisica, Igor Stagljar

“…Molecular Systems Biology…”
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High order expression dependencies finely resolve cryptic states and subtypes in single cell data by Abel Jansma, Yuelin Yao, Jareth Wolfe, Luigi Del Debbio, Sjoerd V Beentjes, Chris P Ponting, Ava Khamseh

“…Molecular Systems Biology…”
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A split intein and split luciferase-coupled system for detecting protein-protein interactions by Zhong Yao, Jiyoon Kim, Betty Geng, Jinkun Chen, Victoria Wong, Anna Lyakisheva, Jamie Snider, Marina Rudan Dimlić, Sanda Raić, Igor Stagljar

“…Molecular Systems Biology…”
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Modeling critical dosing strategies for stromal-induced resistance to cancer therapy by Anna K. Kraut, Colleen M. Garvey, Carly Strelez, Shannon M. Mumenthaler, Jasmine Foo

“…npj Systems Biology and Applications…”
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APMAT analysis reveals the association between CD8 T cell receptors, cognate antigen, and T cell phenotype and persistence by Jingyi Xie, Daniel G. Chen, William Chour, Rachel H. Ng, Rongyu Zhang, Dan Yuan, Jongchan Choi, Michaela McKasson, Pamela Troisch, Brett Smith, Lesley Jones, Andrew Webster, Yusuf Rasheed, Sarah Li, Rick Edmark, Sunga Hong, Kim M. Murray, Jennifer K. Logue, Nicholas M. Franko, Christopher G. Lausted, Brian Piening, Heather Algren, Julie Wallick, Andrew T. Magis, Kino Watanabe, Phil Mease, Philip D. Greenberg, Helen Chu, Jason D. Goldman, Yapeng Su, James R. Heath

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A systematic scoping review reveals that geographic and taxonomic patterns influence the scientific and societal interest in urban soil microbial diversity by Simon Masson, Matteo Chialva, Davide Bongiovanni, Martino Adamo, Irene Stefanini, Luisa Lanfranco

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Modeling and designing enhancers by introducing and harnessing transcription factor binding units by Jiaqi Li, Pengcheng Zhang, Xi Xi, Liyang Liu, Lei Wei, Xiaowo Wang

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The tetracycline resistome is shaped by selection for specific resistance mechanisms by each antibiotic generation by Kevin S. Blake, Yao-Peng Xue, Vincent J. Gillespie, Skye R. S. Fishbein, Niraj H. Tolia, Timothy A. Wencewicz, Gautam Dantas

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Comparative evaluation of cell-based assay technologies for scoring drug-induced condensation of SARS-CoV-2 nucleocapsid protein by Rui Tong Quek, Cyna R. Shirazinejad, Christina L. Young, Kierra S. Hardy, Samuel Lim, Phillip J. Elms, David T. McSwiggen, Timothy J. Mitchison, Pamela A. Silver

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Identification of meibomian gland testosterone metabolites produced by tissue-intrinsic intracrine deactivation activity by Khanh Tien Nguyen Pham, Takahito Miyake, Tomo Suzuki, Shigeru Kinoshita, Yuki Hamada, Hikari Uehara, Mamiko Machida, Takeshi Nakajima, Emi Hasegawa, Masao Doi

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