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  StandardRat: A multi-center consensus protocol to enhance functional connectivity specificity in the rat brain

Grandjean, J., Desrosiers-Gregoire, G., Anckaerts, C., Angeles-Valdez, D., Ayad, F., Barrière, D., et al. (submitted). StandardRat: A multi-center consensus protocol to enhance functional connectivity specificity in the rat brain.

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Grandjean, J, Author
Desrosiers-Gregoire, G, Author
Anckaerts, C, Author
Angeles-Valdez, D, Author
Ayad, F, Author
Barrière, DA, Author
Blockx, I, Author
Bortel, AB, Author
Broadwater, M, Author
Cardoso, BM, Author
Célestine, M, Author
Chavez-Negrete, JE, Author
Choi, S1, Author           
Christiaen, E, Author
Clavijo, P, Author
Colon-Perez, L, Author
Cramer, S, Author
Daniele, T, Author
Dempsey, E, Author
Diao, Y, Author
Doelemeyer, A, AuthorDopfel, D, Author Dvořáková, L, AuthorFalfán-Melgoza, C, AuthorFernandes, FF, AuthorFowler, CF, AuthorFuentes-Ibañez, A, AuthorGarin, C, AuthorGelderman, E, AuthorGolden, Carla EM, AuthorGuo, Chao CG, AuthorHenckens, Marloes JAG, AuthorHennessy, Lauren A, AuthorHerman, Peter, AuthorHofwijks, Nita, AuthorHorien, Corey, AuthorIonescu, Tudor M, AuthorJones, Jolyon, AuthorKaesser, Johannes, AuthorKim, Eugene, AuthorLambers, Henriette, AuthorLazari, Alberto, AuthorLee, Sung-Ho, AuthorLillywhite, Amanda, AuthorLiu, Yikang, AuthorLiu, Yanyan Y, AuthorLópez-Castro, Alejandra, AuthorLópez-Gil, Xavier, AuthorMa, Zilu, AuthorMacNicol, Eilidh, AuthorMadularu, Dan, AuthorMandino, Francesca, AuthorMarciano, Sabina, AuthorMcAuslan, Matthew J, AuthorMcCunn, Patrick, AuthorMcIntosh, Alison, AuthorMeng, Xianzong, AuthorMeyer-Baese, Lisa, AuthorMissault, Stephan, AuthorMoro, Federico, AuthorNaessens, Daphne, AuthorNava-Gomez, Laura J, AuthorNonaka, Hiroi, AuthorOrtiz, Juan J, AuthorPaasonen, Jaakko, AuthorPeeters, Lore M, AuthorPereira, M, AuthorPerez, Pablo D, AuthorPompilus, Marjory, AuthorPrior, Malcolm, AuthorRakhmatullin, Rustam, AuthorReimann, Henning M, AuthorReinwald, Jonathan, Authorde Rio, Rodrigo Triana, AuthorRivera-Olvera, Alejandro, AuthorRuiz-Pérez, Daniel, AuthorRusso, Gabriele, AuthorRutten, Tobias J, AuthorRyoke, Rie, AuthorSack, Markus, AuthorSalvan, Piergiorgio, AuthorSanganahalli, Basavaraju G, AuthorSchroeter, Aileen, AuthorSeewoo, Bhedita J, AuthorSelingue, Erwan, AuthorSeuwen, Aline, AuthorShi, Bowen, AuthorSirmpilatze, Nikoloz, AuthorSmith, Joanna AB, AuthorSmith, Corrie, AuthorSobczak, F1, Author           Stenroos, Petteri J, AuthorStraathof, Milou, AuthorStrobelt, Sandra, AuthorSumiyoshi, Akira, AuthorTakahashi, K1, Author           Torres-Garcia, ME, AuthorTudela, Raul, Authorvan den Berg, Monica, Authorvan der Marel, Kajo, Authorvan Hout, Aran TB, AuthorVertullo, Roberta, AuthorVidal, Benjamin, AuthorVrooman, Roel M, AuthorWang, Victora X, AuthorWank, Isabel, AuthorWatson, David JG, AuthorYin, Ting, AuthorZhang, Yongzhi, AuthorZurbruegg, Stefan, AuthorAchard, Sophie, AuthorAlcauter, Sarael, AuthorAuer, Dorothee P, AuthorBarbier, Emmanuel L, AuthorBaudewig, J, AuthorBeckmann, Christian F, AuthorBeckmann, Nicolau, AuthorBecq, Guillaume JPC, AuthorBlezer, Erwin LA, AuthorBolbos, Radu, AuthorBoretius, Susann, AuthorBouvard, Sandrine, AuthorBudinger, Eike, AuthorBuxbaum, Joseph D, AuthorCash, Diana, AuthorChapman, Victoria, AuthorChuang, Kai-Hsiang, AuthorCiobanu, Luisa, AuthorCoolen, Bram, AuthorDalley, Jeffrey W, AuthorDhenain, Marc, AuthorDijkhuizen, Rick M, AuthorEsteban, Oscar, AuthorFaber, Cornelius, AuthorFebo, Marcelo, AuthorFeindel, Kirk W, AuthorForloni, Gianluigi, AuthorFouquet, Jérémie, AuthorGarza-Villarreal, Eduardo A, AuthorGass, Natalia, AuthorGlennon, Jeffrey C, AuthorGozzi, Alessandro, AuthorGröhn, Olli, AuthorHarkin, Andrew, AuthorHeerschap, Arend, AuthorHelluy, Xavier, AuthorHerfert, Kristina, AuthorHeuser, Arnd, AuthorHomberg, Judith R, AuthorHouwing, Danielle J, AuthorHyder, Fahmeed, AuthorIelacqua, Giovanna Diletta, AuthorJelescu, Ileana O, AuthorJohansen-Berg, Heidi, AuthorKaneko, Gen, AuthorKawashima, Ryuta, AuthorKeilholz, Shella D, AuthorKeliris, Georgios A, AuthorKelly, Clare, AuthorKerskens, Christian, AuthorKhokhar, Jibran Y, AuthorKind, Peter C, AuthorLanglois, Jean-Baptiste, AuthorLerch, Jason P, AuthorLópez-Hidalgo, Monica A, AuthorManahan-Vaughan, Denise, AuthorMarchand, Fabien, AuthorMars, Rogier B, AuthorMarsella, Gerardo, AuthorMicotti, Edoardo, AuthorMuñoz-Moreno, Emma, AuthorNear, Jamie, AuthorNiendorf, Thoralf, AuthorOtte, Willem M, AuthorPais, P1, Author           Pan, Wen-Ju, AuthorPrado-Alcalá, Roberto A, AuthorQuirarte, Gina L, AuthorRodger, Jennifer, AuthorRosenow, Tim, AuthorBaptista, Cassandra Sampaio, AuthorSartorius, Alexander, AuthorSawiak, Stephen J, AuthorScheenen, Tom WJ, AuthorShemesh, Noam, AuthorShih, Yen-Yu Ian, AuthorShmuel, Amir, AuthorSoria, Guadalupe, AuthorStoop, Ron, AuthorThompson, Garth J, AuthorTill, Sally M, AuthorTodd, Nick, AuthorVan Der Linden, Annemie, Authorvan der Toorn, Annette, Authorvan Tilborg, Geralda AF, AuthorVanhove, Christian, AuthorVeltien, Andor, AuthorVerhoye, Marleen, AuthorWachsmuth, Lydia, AuthorWeber-Fahr, Wolfgang, AuthorWenk, Patricia, AuthorYu, X1, Author           Zerbi, Valerio, AuthorZhang, Nanyin, AuthorZhang, Baogui B, AuthorZimmer, Luc, AuthorDevenyi, Gabriel A, AuthorChakravarty, M Mallar, AuthorHess, Andreas, Author more..
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1Research Group Translational Neuroimaging and Neural Control, Max Planck Institute for Biological Cybernetics, Max Planck Society, ou_2528695              

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 Abstract: Task-free functional connectivity in animal models provides an experimental framework to examine connectivity phenomena under controlled conditions and allows comparison with invasive or terminal procedures. To date, animal acquisitions are performed with varying protocols and analyses that hamper result comparison and integration. We introduce StandardRat, a consensus rat functional MRI acquisition protocol tested across 20 centers. To develop this protocol with optimized acquisition and processing parameters, we initially aggregated 65 functional imaging datasets acquired in rats from 46 centers. We developed a reproducible pipeline for the analysis of rat data acquired with diverse protocols and determined experimental and processing parameters associated with a more robust functional connectivity detection. We show that the standardized protocol enhances biologically plausible functional connectivity patterns, relative to pre-existing acquisitions. The protocol and processing pipeline described here are openly shared with the neuroimaging community to promote interoperability and cooperation towards tackling the most important challenges in neuroscience.Competing Interest StatementAline Seuwen is an employee of Bruker, the manufacturer of preclinical MRI systems used for the acquisition of the majority of the datasets in this collection. Emmanuel L. Barbier is a consultant for Bruker. Benjamin Vidal is an employee of Theranexus company. Stefan Zurbruegg, Arno Doelemeyer, and Nicolau Beckmann are employees of Novartis Pharma AG. Thoralf Niendorf is founder and CEO of MRI.TOOLS GmbH.

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 Dates: 2022-04
 Publication Status: Submitted
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 Identifiers: DOI: 10.1101/2022.04.27.489658
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Title: bioRxiv
Source Genre: Journal
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