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2. A consensus protocol for functional connectivity analysis in the rat brain

Author

Grandjean, J., Desrosiers-Gregoire, G., Anckaerts, C., Angeles-Valdez, D., Ayad, F., Barrière, D., Blockx, I., Bortel, A., Broadwater, M., Cardoso, B., Célestine, M., Chavez-Negrete, J., Choi, S., Christiaen, E., Clavijo, P., Colon-Perez, L., Cramer, S., Daniele, T., Dempsey, E., Diao, Y., Doelemeyer, A., Dopfel, D., Dvořáková, L., Falfán-Melgoza, C., Fernandes, F., Fowler, C., Fuentes-Ibañez, A., Garin, C., Gelderman, E., Golden, C., Guo, C., Henckens, M., Hennessy, L., Herman , P., Hofwijks, N., Horien, C., Ionescu, T., Jones, J., Kaesser, J., Kim, E., Lambers, H., Lazari, A., Lee, S., Lillywhite, A., Liu, Y., López-Castro, A., López-Gil , X., Ma, Z., MacNicol, E., Madularu, D., Mandino, F., Marciano, S., McAuslan, M., McCunn, P., McIntosh, A., Meng, X., Meyer-Baese, L., Missault, S., Moro, F., Naessens, D., Nava-Gomez, L., Nonaka, H., Ortiz, J., Paasonen, J., Pais-Roldán, P., Peeters, L., Pereira, M., Perez, P., Pompilus, M., Prior, M., Rakhmatullin, R., Reimann, H., Reinwald, J., Triana Del Rio, R., Rivera-Olvera, A., Ruiz-Pérez, D., Russo, G., Rutten, T., Ryoke, R., Sack, M., Salvan, P., Sanganahalli, B., Schroeter, A., Seewoo , B., Selingue, E., Seuwen, A., Shi, B., Sirmpilatze, N., Smith, J., Smith, C., Sobczak, F., Stenroos, P., Straathof, M., Strobelt, S., Sumiyoshi, A., Takahashi, K., Torres-García, M., Tudela, R., van den Berg, M., van der Marel, K., van Hout, A., Vertullo, R., Vidal, B., Vrooman, R., Wang, X., Wank, I., Watson, D., Yin, T., Zhang, Y., Zurbruegg, S., Achard, S., Alcauter, S., Auer, D., Barbier, E., Baudewig, J., Beckmann, C., Beckmann, N., Becq, G., Blezer, E., Bolbos, R., Boretius, S., Bouvard, S., Budinger, E., Buxbaum, J., Cash, D., Chapman, V., Chuang, K., Ciobanu, L., Coolen, B., Dalley, J., Dhenain, M., Dijkhuizen, R., Esteban, O., Faber, C., Febo, M., Feindel, K., Forloni, G., Fouquet, J., Garza-Villarreal, E., Gass, N., Glennon, J., Gozzi, A., Gröhn, O., Harkin, A., Heerschap, A., Helluy, X., Herfert , K., Heuser, A., Homberg, J., Houwing, D., Hyder, F., Ielacqua, G., Jelescu, I., Johansen-Berg, H., Kaneko, G., Kawashima, R., Keilholz, S., Keliris, G., Kelly, C., Kerskens, C., Khokhar, J., Kind, P., Langlois, J., Lerch, J., López-Hidalgo, M., Manahan-Vaughan, D., Marchand, F., Mars, R., Marsella, G., Micotti , E., Muñoz-Moreno , E., Near, J., Niendorf, T., Otte, W., Pan , W., Prado-Alcalá, R., Quirarte, G., Rodger , J., Rosenow, T., Sampaio-Baptista, C., Sartorius, A., Sawiak, S., Scheenen, T., Shemesh, Shih, Y., Shmuel, A., Soria, G., Stoop, R., Thompson, G., Till, S., Todd, N., Van Der Linden, A., van der Toorn, A., van Tilborg, G., Vanhove, C., Veltien, A., Verhoye, M., Wachsmuth, L., Weber-Fahr, W., Wenk , P., Yu, X., Zerbi , V., Zhang , N., Zhang, B., Zimmer, L., Devenyi, G., Chakravarty, M., and Hess, A.

Subjects
Action, intention, and motor control, General Neuroscience, fmri, Medizin, Stress-related disorders Donders Center for Medical Neuroscience [Radboudumc 13], Human medicine
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.

Published
2023
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3. Author Correction: A consensus protocol for functional connectivity analysis in the rat brain

Author

Grandjean, J., Desrosiers-Gregoire, G., Anckaerts, C., Angeles-Valdez, D., Ayad, F., Barrière, D., Blockx, I., Bortel, A., Broadwater, M., Cardoso, B., Célestine, M., Chavez-Negrete, J., Choi, S., https://orcid.org/0000-0001-7327-1344, Christiaen, E., Clavijo, P., Colon-Perez, L., Cramer, S., Daniele, T., Dempsey, E., Diao, Y., Doelemeyer, A., Dopfel, D., Dvořáková, L., Falfán-Melgoza, C., Fernandes, F., Fowler, C., Fuentes-Ibañez, A., Garin, C., Gelderman, E., Golden, C., Guo, C., Henckens, M., Hennessy, L., Herman , P., Hofwijks, N., Horien, C., Ionescu, T., Jones, J., Kaesser, J., Kim, E., Lambers, H., Lazari, A., Lee, S., Lillywhite, A., Liu, Y., López-Castro, A., López-Gil , X., Ma, Z., MacNicol, E., Madularu, D., Mandino, F., Marciano, S., McAuslan, M., McCunn, P., McIntosh, A., Meng, X., Meyer-Baese, L., Missault, S., Moro, F., Naessens, D., Nava-Gomez, L., Nonaka, H., Ortiz, J., Paasonen, J., Pais-Roldán, P., https://orcid.org/0000-0002-9381-3048, Peeters, L., Pereira, M., Perez, P., Pompilus, M., Prior, M., Rakhmatullin, R., Reimann, H., Reinwald, J., Triana Del Rio, R., Rivera-Olvera, A., Ruiz-Pérez, D., Russo, G., Rutten, T., Ryoke, R., Sack, M., Salvan, P., Sanganahalli, B., Schroeter, A., Seewoo , B., Selingue, E., Seuwen, A., Shi, B., Sirmpilatze, N., Smith, J., Smith, C., Sobczak, F., Stenroos, P., Straathof, M., Strobelt, S., Sumiyoshi, A., Takahashi, K., Torres-García, M., Tudela, R., van den Berg, M., van der Marel, K., van Hout, A., Vertullo, R., Vidal, B., Vrooman, R., Wang, X., Wank, I., Watson, D., Yin, T., Zhang, Y., Zurbruegg, S., Achard, S., Alcauter, S., Auer, D., Barbier, E., Baudewig, J., Beckmann, C., Beckmann, N., Becq, G., Blezer, E., Bolbos, R., Boretius, S., Bouvard, S., Budinger, E., Buxbaum, J., Cash, D., Chapman, V., Chuang, K., Ciobanu, L., Coolen, B., Dalley, J., Dhenain, M., Dijkhuizen, R., Esteban, O., Faber, C., Febo, M., Feindel, K., Forloni, G., Fouquet, J., Garza-Villarreal, E., Gass, N., Glennon, J., Gozzi, A., Gröhn, O., Harkin, A., Heerschap, A., Helluy, X., Herfert , K., Heuser, A., Homberg, J., Houwing, D., Hyder, F., Ielacqua, G., Jelescu, I., Johansen-Berg, H., Kaneko, G., Kawashima, R., Keilholz, S., Keliris, G., Kelly, C., Kerskens, C., Khokhar, J., Kind, P., Langlois, J., Lerch, J., López-Hidalgo, M., Manahan-Vaughan, D., Marchand, F., Mars, R., Marsella, G., Micotti , E., Muñoz-Moreno , E., Near, J., Niendorf, T., Otte, W., Pan , W., Prado-Alcalá, R., Quirarte, G., Rodger , J., Rosenow, T., Sampaio-Baptista, C., Sartorius, A., Sawiak, S., Scheenen, T., Shemesh, Shih, Y., Shmuel, A., https://orcid.org/0000-0003-3028-6639, Soria, G., Stoop, R., https://orcid.org/0000-0002-3532-1512, Thompson, G., Till, S., Todd, N., Van Der Linden, A., van der Toorn, A., van Tilborg, G., Vanhove, C., Veltien, A., Verhoye, M., Wachsmuth, L., Weber-Fahr, W., Wenk , P., Yu, X., Zerbi , V., Zhang , N., Zhang, B., Zimmer, L., Devenyi, G., Chakravarty, M., and Hess, A.

Subjects
General Neuroscience, Medizin
Abstract

Weitere Nicht-UDE Autoren sind nicht mit aufgeführt. in press

Published
2023
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4. Zentrale Schmerzantwort und Krankheitsaktivität bei Patienten mit Rheumatoider Arthritis nach Therapie mit Certolizumab-pegol vs. Placebo: Eine post-hoc Analyse der PreCePRA Studie

Author

Schenker, H, Rech, J, Tascilar, K, Hagen, M, Schönau, V, Sergeeva, M, Konerth, L, Prade, J, Strobelt, S, Valor Mendez, L, Hueber, A, Simon, D, Kleyer, A, Behrens, F, Da Silva, JAP, Baerwald, C, Finzel, S, Voll, R, Feist, E, Dörfler, A, Damjanov, N, Hess, A, and Schett, G

Subjects
ddc: 610, 610 Medical sciences, Medicine
Abstract

Einleitung: In bisherigen Untersuchungen von RA Patienten konnten wir zeigen, dass die zentrale Schmerzantwort auf Kompression eines schmerzhaften Gelenks hin, dargestellt durch ein funktionelles MRT des Gehirns in Abhängigkeit von Blutsauerstoffgehalt (blood-oxygen level dependent=BOLD), [zum vollständigen Text gelangen Sie über die oben angegebene URL], Deutscher Rheumatologiekongress 2020, 48. Kongress der Deutschen Gesellschaft für Rheumatologie (DGRh), 34. Jahrestagung der Deutschen Gesellschaft für Orthopädische Rheumatologie (DGORh)

Published
2020
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5. Common functional networks in the mouse brain revealed by multi-centre resting-state fMRI analysis

Author

Grandjean, J., Canella, C., Anckaerts, C., Ayranci, G., Bougacha, S., Bienert, T., Buehlmann, D., Coletta, L., Gallino, D., Gass, N., Garin, C.M., Nadkarni, N.A., Hubner, N.S., Karatas, M., Komaki, Y., Kreitz, S., Mandino, F., Mechling, A.E., Sato, C., Sauer, K., Shah, D., Strobelt, S., Takata, N., Wank, I., Wu, T., Yahata, N., Yeow, L.Y., Yee, Y., Aoki, I., Chakravarty, M.M., Chang, W.T., Dhenain, M., Elverfeldt, D. von, Harsan, L.A., Hess, A., Jiang, T., Keliris, G.A., Lerch, J.P., Meyer-Lindenberg, A., Okano, H., Rudin, M., Sartorius, A., Linden, A. van der, Verhoye, M., Weber-Fahr, W., Wenderoth, N., Zerbi, V., Gozzi, A., Grandjean, J., Canella, C., Anckaerts, C., Ayranci, G., Bougacha, S., Bienert, T., Buehlmann, D., Coletta, L., Gallino, D., Gass, N., Garin, C.M., Nadkarni, N.A., Hubner, N.S., Karatas, M., Komaki, Y., Kreitz, S., Mandino, F., Mechling, A.E., Sato, C., Sauer, K., Shah, D., Strobelt, S., Takata, N., Wank, I., Wu, T., Yahata, N., Yeow, L.Y., Yee, Y., Aoki, I., Chakravarty, M.M., Chang, W.T., Dhenain, M., Elverfeldt, D. von, Harsan, L.A., Hess, A., Jiang, T., Keliris, G.A., Lerch, J.P., Meyer-Lindenberg, A., Okano, H., Rudin, M., Sartorius, A., Linden, A. van der, Verhoye, M., Weber-Fahr, W., Wenderoth, N., Zerbi, V., and Gozzi, A.

Abstract

Contains fulltext : 219632.pdf (publisher's version ) (Open Access), Preclinical applications of resting-state functional magnetic resonance imaging (rsfMRI) offer the possibility to non-invasively probe whole-brain network dynamics and to investigate the determinants of altered network signatures observed in human studies. Mouse rsfMRI has been increasingly adopted by numerous laboratories worldwide. Here we describe a multi-centre comparison of 17 mouse rsfMRI datasets via a common image processing and analysis pipeline. Despite prominent cross-laboratory differences in equipment and imaging procedures, we report the reproducible identification of several large-scale resting-state networks (RSN), including a mouse default-mode network, in the majority of datasets. A combination of factors was associated with enhanced reproducibility in functional connectivity parameter estimation, including animal handling procedures and equipment performance. RSN spatial specificity was enhanced in datasets acquired at higher field strength, with cryoprobes, in ventilated animals, and under medetomidine-isoflurane combination sedation. Our work describes a set of representative RSNs in the mouse brain and highlights key experimental parameters that can critically guide the design and analysis of future rodent rsfMRI investigations.

Published
2020

6. Vorhersage des Ansprechens der RA auf die Behandlung mit Certolizumab-Pegol (CZP) mittels funktionellen MRT (fMRT) des ZNS. Eine international, randomisierte, doppelt-blinde Phase III Studie (PreCePRA)

Author

Rech, J, Tascilar, K, Schenker, H, Sergeeva, M, Selvakumar, M, Konerth, L, Prade, J, Strobelt, S, Hagen, M, Schönau, V, Valor Mendez, L, Hueber, A, Simon, D, Kleyer, A, Behrens, F, Da Silva, JAP, Baerwald, C, Finzel, S, Voll, R, Feist, E, Dörfler, A, Damjanov, N, Hess, A, Schett, G, Rech, J, Tascilar, K, Schenker, H, Sergeeva, M, Selvakumar, M, Konerth, L, Prade, J, Strobelt, S, Hagen, M, Schönau, V, Valor Mendez, L, Hueber, A, Simon, D, Kleyer, A, Behrens, F, Da Silva, JAP, Baerwald, C, Finzel, S, Voll, R, Feist, E, Dörfler, A, Damjanov, N, Hess, A, and Schett, G

Published
2020

7. Longitudinale Veränderungen der ZNS-Schmerzantwort unter Therapie mit Certolizumab-Pegol (CZP) bei rheumatoider Arthritis. Eine post-hoc Analyse der PreCePRA Studie

Author

Rech, J, Tascilar, K, Schenker, H, Hagen, M, Sergeeva, M, Selvakumar, M, Konerth, L, Prade, J, Strobelt, S, Schönau, V, Valor Mendez, L, Hueber, A, Simon, D, Kleyer, A, Behrens, F, Baerwald, C, Finzel, S, Voll, R, Feist, E, Da Silva, JAP, Dörfler, A, Damjanov, N, Hess, A, Schett, G, Rech, J, Tascilar, K, Schenker, H, Hagen, M, Sergeeva, M, Selvakumar, M, Konerth, L, Prade, J, Strobelt, S, Schönau, V, Valor Mendez, L, Hueber, A, Simon, D, Kleyer, A, Behrens, F, Baerwald, C, Finzel, S, Voll, R, Feist, E, Da Silva, JAP, Dörfler, A, Damjanov, N, Hess, A, and Schett, G

Published
2020

8. Molekularbiologischer Nachweis von Markergenen für die Virulenz in Escherichia coli

Author

Strobelt, S. (Stefan), Friedrich, A. (Alexander), and Universitäts- und Landesbibliothek Münster

Subjects
Medicine and health, ddc:610, Escherichia coli, EHEC, Evolution, Diagnostik, O-Island
Abstract

Die Arbeit ermöglicht mit Hilfe spezifischer molekularbiologischer Marker für die Virulenz von Escherichia coli die Differenzierung zwischen EHEC O157:H7 und O157:H-.Anhand von Gendatenbanken wurden 5 spezifische Genabschnitte, sogenannte O-Islands ausgewählt und ihr Vorhandensein in repräsentativen E. coli Stämmen untersucht.Innerhalb der E. coli Population zeigten OI 09 und OI 154 ein fast ausschließliches Auftreten in den Serotypen O55:H7, O157:H7 und O157:H- und fügen sich in das bekannte Evolutionsmodell von EHEC O157. Der Genabschnitt OI 172 konnte vorwiegend in O157:H7 Stämmen gefunden werden. Durch den fehlenden Nachweis in O157:H- Stämmen konnte mit OI 172 eine Unterscheidung zwischen EHEC O157:H7 und den SF EHEC O157: H- Stämmen erfolgen und das Evolutionsmodell erweitert werden. Die Gene der O-Islands sind assoziiert mit schwerem Krankheitsbild und Virulenz.Die OI 172 ermöglicht eine Differenzierung zwischen O157:H7 und dem hochpathogenen SF EHEC O157: H-.

Published
2008

10. Common functional networks in the mouse brain revealed by multi-centre resting-state fMRI analysis.

Author

Grandjean J, Canella C, Anckaerts C, Ayrancı G, Bougacha S, Bienert T, Buehlmann D, Coletta L, Gallino D, Gass N, Garin CM, Nadkarni NA, Hübner NS, Karatas M, Komaki Y, Kreitz S, Mandino F, Mechling AE, Sato C, Sauer K, Shah D, Strobelt S, Takata N, Wank I, Wu T, Yahata N, Yeow LY, Yee Y, Aoki I, Chakravarty MM, Chang WT, Dhenain M, von Elverfeldt D, Harsan LA, Hess A, Jiang T, Keliris GA, Lerch JP, Meyer-Lindenberg A, Okano H, Rudin M, Sartorius A, Van der Linden A, Verhoye M, Weber-Fahr W, Wenderoth N, Zerbi V, and Gozzi A

Subjects
Animals, Brain diagnostic imaging, Connectome standards, Female, Image Processing, Computer-Assisted standards, Magnetic Resonance Imaging standards, Male, Mice, Mice, Inbred C57BL, Nerve Net diagnostic imaging, Reproducibility of Results, Brain physiology, Connectome methods, Image Processing, Computer-Assisted methods, Magnetic Resonance Imaging methods, Nerve Net physiology
Abstract

Preclinical applications of resting-state functional magnetic resonance imaging (rsfMRI) offer the possibility to non-invasively probe whole-brain network dynamics and to investigate the determinants of altered network signatures observed in human studies. Mouse rsfMRI has been increasingly adopted by numerous laboratories worldwide. Here we describe a multi-centre comparison of 17 mouse rsfMRI datasets via a common image processing and analysis pipeline. Despite prominent cross-laboratory differences in equipment and imaging procedures, we report the reproducible identification of several large-scale resting-state networks (RSN), including a mouse default-mode network, in the majority of datasets. A combination of factors was associated with enhanced reproducibility in functional connectivity parameter estimation, including animal handling procedures and equipment performance. RSN spatial specificity was enhanced in datasets acquired at higher field strength, with cryoprobes, in ventilated animals, and under medetomidine-isoflurane combination sedation. Our work describes a set of representative RSNs in the mouse brain and highlights key experimental parameters that can critically guide the design and analysis of future rodent rsfMRI investigations., (Copyright © 2019 Elsevier Inc. All rights reserved.)

Published
2020
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