@article{01GX2VCFNMDPWWG6PFD45PBW90,
  abstract     = {{Task-free functional connectivity in animal models provides an experimental framework to examine connectivity phenomena under controlled conditions and allows for comparisons with data modalities collected under invasive or terminal procedures. Currently, animal acquisitions are performed with varying protocols and analyses that hamper result comparison and integration. Here we introduce StandardRat, a consensus rat functional magnetic resonance imaging acquisition protocol tested across 20 centers. To develop this protocol with optimized acquisition and processing parameters, we initially aggregated 65 functional imaging datasets acquired from rats across 46 centers. We developed a reproducible pipeline for analyzing rat data acquired with diverse protocols and determined experimental and processing parameters associated with the robust detection of functional connectivity across centers. We show that the standardized protocol enhances biologically plausible functional connectivity patterns relative to previous acquisitions. The protocol and processing pipeline described here is openly shared with the neuroimaging community to promote interoperability and cooperation toward tackling the most important challenges in neuroscience.

The authors pooled resources to identify best practices and develop a new standardized protocol for estimating functional connectivity in rats with magnetic resonance imaging.}},
  author       = {{Grandjean, Joanes and Desrosiers-Gregoire, Gabriel and Anckaerts, Cynthia and Angeles-Valdez, Diego and Ayad, Fadi and Barrière, David A. and Blockx, Ines and Bortel, Aleksandra and Broadwater, Margaret and Cardoso, Beatriz M. and Célestine, Marina and Chavez-Negrete, Jorge E. and Choi, Sangcheon and Christiaen, Emma and Clavijo, Perrin and Colon-Perez, Luis and Cramer, Samuel and Daniele, Tolomeo and Dempsey, Elaine and Diao, Yujian and Doelemeyer, Arno and Dopfel, David and Dvořáková, Lenka and Falfán-Melgoza, Claudia and Fernandes, Francisca F. and Fowler, Caitlin F. and Fuentes-Ibañez, Antonio and Garin, Clément and Gelderman, Eveline and Golden, Carla E. M. and Guo, Chao C. G. and Henckens, Marloes J. A. G. and Hennessy, Lauren A. and Herman, Peter and Hofwijks, Nita and Horien, Corey and Ionescu, Tudor M. and Jones, Jolyon and Kaesser, Johannes and Kim, Eugene and Lambers, Henriette and Lazari, Alberto and Lee, Sung-Ho and Lillywhite, Amanda and Liu, Yikang and Liu, Yanyan Y. and López -Castro, Alejandra and López-Gil, Xavier and Ma, Zilu and MacNicol, Eilidh and Madularu, Dan and Mandino, Francesca and Marciano, Sabina and McAuslan, Matthew J. and McCunn, Patrick and McIntosh, Alison and Meng, Xianzong and Meyer-Baese, Lisa and Missault, Stephan and Moro, Federico and Naessens, Daphne M. P. and Nava-Gomez, Laura J. and Nonaka, Hiroi and Ortiz, Juan J. and Paasonen, Jaakko and Peeters, Lore M. and Pereira, Mickaël and Perez, Pablo D. and Pompilus, Marjory and Prior, Malcolm and Rakhmatullin, Rustam and Reimann, Henning M. and Reinwald, Jonathan and Del Rio, Rodrigo Triana and Rivera-Olvera, Alejandro and Ruiz-Pérez, Daniel and Russo, Gabriele and Rutten, Tobias J. and Ryoke, Rie and Sack, Markus and Salvan, Piergiorgio and Sanganahalli, Basavaraju G. and Schroeter, Aileen and Seewoo, Bhedita J. and Selingue, Erwan and Seuwen, Aline and Shi, Bowen and Sirmpilatze, Nikoloz and Smith, Joanna A. B. and Smith, Corrie and Sobczak, Filip and Stenroos, Petteri J. and Straathof, Milou and Strobelt, Sandra and Sumiyoshi, Akira and Takahashi, Kengo and Torres-García, Maria E. and Tudela, Raul and van den Berg, Monica and van der Marel, Kajo and van Hout, Aran T. B. and Vertullo, Roberta and Vidal, Benjamin and Vrooman, Roël M. and Wang, Victora X. and Wank, Isabel and Watson, David J. G. and Yin, Ting and Zhang, Yongzhi and Zurbruegg, Stefan and Achard, Sophie and Alcauter, Sarael and Auer, Dorothee P. and Barbier, Emmanuel L. and Baudewig, Jürgen and Beckmann, Christian F. and Beckmann, Nicolau and Becq, Guillaume J. P. C. and Blezer, Erwin L. A. and Bolbos, Radu and Boretius, Susann and Bouvard, Sandrine and Budinger, Eike and Buxbaum, Joseph D. and Cash, Diana and Chapman, Victoria and Chuang, Kai-Hsiang and Ciobanu, Luisa and Coolen, Bram F. and Dalley, Jeffrey W. and Dhenain, Marc and Dijkhuizen, Rick M. and Esteban, Oscar and Faber, Cornelius and Febo, Marcelo and Feindel, Kirk W. and Forloni, Gianluigi and Fouquet, Jérémie and Garza-Villarreal, Eduardo A. and Gass, Natalia and Glennon, Jeffrey C. and Gozzi, Alessandro and Gröhn, Olli and Harkin, Andrew and Heerschap, Arend and Helluy, Xavier and Herfert, Kristina and Heuser, Arnd and Homberg, Judith R. and Houwing, Danielle J. and Hyder, Fahmeed and Ielacqua, Giovanna Diletta and Jelescu, Ileana O. and Johansen-Berg, Heidi and Kaneko, Gen and Kawashima, Ryuta and Keilholz, Shella D. and Keliris, Georgios A. and Kelly, Clare and Kerskens, Christian and Khokhar, Jibran Y. and Kind, Peter C. and Langlois, Jean-Baptiste and Lerch, Jason P. and López-Hidalgo, Monica A. and Manahan-Vaughan, Denise and Marchand, Fabien and Mars, Rogier B. and Marsella, Gerardo and Micotti, Edoardo and Muñoz-Moreno, Emma and Near, Jamie and Niendorf, Thoralf and Otte, Willem M. and Pais-Roldán, Patricia and Pan, Wen-Ju and Prado-Alcalá, Roberto A. and Quirarte, Gina L. and Rodger, Jennifer and Rosenow, Tim and Sampaio-Baptista, Cassandra and Sartorius, Alexander and Sawiak, Stephen J. and Scheenen, Tom W. J. and Shemesh, Noam and Shih, Yen-Yu Ian and Shmuel, Amir and Soria, Guadalupe and Stoop, Ron and Thompson, Garth J. and Till, Sally M. and Todd, Nick and Van Der Linden, Annemie and van der Toorn, Annette and van Tilborg, Geralda A. F. and Vanhove, Christian and Veltien, Andor and Verhoye, Marleen and Wachsmuth, Lydia and Weber-Fahr, Wolfgang and Wenk, Patricia and Yu, Xin and Zerbi, Valerio and Zhang, Nanyin and Zhang, Baogui B. and Zimmer, Luc and Devenyi, Gabriel A. and Chakravarty, M. Mallar and Hess, Andreas}},
  issn         = {{1097-6256}},
  journal      = {{NATURE NEUROSCIENCE}},
  keywords     = {{General Neuroscience,FMRI}},
  language     = {{eng}},
  pages        = {{673--681}},
  title        = {{A consensus protocol for functional connectivity analysis in the rat brain}},
  url          = {{http://doi.org/10.1038/s41593-023-01286-8}},
  volume       = {{26}},
  year         = {{2023}},
}

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