A consensus protocol for functional connectivity analysis in the rat brain

Item Type:	Article
Title:	A consensus protocol for functional connectivity analysis in the rat brain
Creators Name:	Grandjean, J. and Desrosiers-Gregoire, G. and Anckaerts, C. and Angeles-Valdez, D. and Ayad, F. and Barrière, D.A. and Blockx, I. and Bortel, A. and Broadwater, M. and Cardoso, B.M. and Célestine, M. and Chavez-Negrete, J.E. and Choi, S. and Christiaen, E. and Clavijo, P. and Colon-Perez, L. and Cramer, S. and Daniele, T. and Dempsey, E. and Diao, Y. and Doelemeyer, A. and Dopfel, D. and Dvořáková, L. and Falfán-Melgoza, C. and Fernandes, F.F. and Fowler, C.F. and Fuentes-Ibañez, A. and Garin, C.M. and Gelderman, E. and Golden, C.E.M. and Guo, C.C G. and Henckens, M.J.A.G. and Hennessy, L.A. and Herman, P. and Hofwijks, N. and Horien, C. and Ionescu, T.M. and Jones, J. and Kaesser, J. and Kim, E. and Lambers, H. and Lazari, A. and Lee, S.H. and Lillywhite, A. and Liu, Y. and Liu, Y.Y. and López-Castro, A. and López-Gil, X. and Ma, Z. and MacNicol, E. and Madularu, D. and Mandino, F. and Marciano, S. and McAuslan, M.J. and McCunn, P. and McIntosh, A. and Meng, X. and Meyer-Baese, L. and Missault, S. and Moro, F. and Naessens, D.M.P. and Nava-Gomez, L.J. and Nonaka, H. and Ortiz, J.J. and Paasonen, J. and Peeters, L.M. and Pereira, M. and Perez, P.D. and Pompilus, M. and Prior, M. and Rakhmatullin, R. and Reimann, H.M. and Reinwald, J. and Del Rio, R.T. and Rivera-Olvera, A. and Ruiz-Pérez, D. and Russo, G. and Rutten, T.J. and Ryoke, R. and Sack, M. and Salvan, P. and Sanganahalli, B.G. and Schroeter, A. and Seewoo, B.J. and Selingue, E. and Seuwen, A. and Shi, B. and Sirmpilatze, N. and Smith, J.A.B. and Smith, C. and Sobczak, F. and Stenroos, P.J. and Straathof, M. and Strobelt, S. and Sumiyoshi, A. and Takahashi, K. and Torres-García, M.E and Tudela, R. and van den Berg, M. and van der Marel, K. and van Hout, A.T.B. and Vertullo, R. and Vidal, B. and Vrooman, R.M. and Wang, V.X. and Wank, I. and Watson, D.J.G. and Yin, T. and Zhang, Y. and Zurbruegg, S. and Achard, S. and Alcauter, S. and Auer, D.P. and Barbier, E.L. and Baudewig, J. and Beckmann, C.F. and Beckmann, N. and Becq, G.J.P.C. and Blezer, E.L.A. and Bolbos, R. and Boretius, S. and Bouvard, S. and Budinger, E. and Buxbaum, J.D. and Cash, D. and Chapman, V. and Chuang, K.H. and Ciobanu, L. and Coolen, B.F. and Dalley, J.W. and Dhenain, M. and Dijkhuizen, R.M. and Esteban, O. and Faber, C. and Febo, M. and Feindel, K.W. and Forloni, G. and Fouquet, J. and Garza-Villarreal, E.A. and Gass, N. and Glennon, J.C. and Gozzi, A. and Gröhn, O. and Harkin, A. and Heerschap, A. and Helluy, X. and Herfert, K. and Heuser, A. and Homberg, J.R. and Houwing, D.J. and Hyder, F. and Ielacqua, G.D. and Jelescu, I.O. and Johansen-Berg, H. and Kaneko, G. and Kawashima, R. and Keilholz, S.D. and Keliris, G.A. and Kelly, C. and Kerskens, C. and Khokhar, J.Y. and Kind, P.C. and Langlois, J.B. and Lerch, J.P. and López-Hidalgo, M.A and Manahan-Vaughan, D. and Marchand, F. and Mars, R.B. and Marsella, G. and Micotti, E. and Muñoz-Moreno, E. and Near, J. and Niendorf, T. and Otte, W.M. and Pais-Roldán, P. and Pan, W.J. and Prado-Alcalá, R.A. and Quirarte, G.L. and Rodger, J. and Rosenow, T. and Sampaio-Baptista, C. and Sartorius, A. and Sawiak, S.J. and Scheenen, T.W.J. and Shemesh, N. and Shih, Y.Y.I. and Shmuel, A. and Soria, G. and Stoop, R. and Thompson, G.J. and Till, S.M. and Todd, N. and Van Der Linden, A. and van der Toorn, A. and van Tilborg, G.A.F and Vanhove, C. and Veltien, A. and Verhoye, M. and Wachsmuth, L. and Weber-Fahr, W. and Wenk, P. and Yu, X. and Zerbi, V. and Zhang, N. and Zhang, B.B. and Zimmer, L. and Devenyi, G.A. and Chakravarty, M.M. and Hess, A.
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.
Keywords:	Brain Mapping, Brain, Consensus, Magnetic Resonance Imaging, Neuroimaging, Animals, Rats
Source:	Nature Neuroscience
ISSN:	1097-6256
Publisher:	Nature Publishing Group
Volume:	26
Number:	4
Page Range:	673-681
Date:	April 2023
Additional Information:	Erratum in: Nat Neurosci 2023 Apr 18 (in Press) - Copyright © 2023. The Author(s), under exclusive licence to Springer Nature America, Inc.
Official Publication:	https://doi.org/10.1038/s41593-023-01286-8
External Fulltext:	View full text on PubMed Central
PubMed:	View item in PubMed

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