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1. The ENIGMA Stroke Recovery Working Group: Big data neuroimaging to study brain-behavior relationships after stroke.

Author

Liew, Sook-Lei, Liew, Sook-Lei, Zavaliangos-Petropulu, Artemis, Jahanshad, Neda, Lang, Catherine E, Hayward, Kathryn S, Lohse, Keith R, Juliano, Julia M, Assogna, Francesca, Baugh, Lee A, Bhattacharya, Anup K, Bigjahan, Bavrina, Borich, Michael R, Boyd, Lara A, Brodtmann, Amy, Buetefisch, Cathrin M, Byblow, Winston D, Cassidy, Jessica M, Conforto, Adriana B, Craddock, R Cameron, Dimyan, Michael A, Dula, Adrienne N, Ermer, Elsa, Etherton, Mark R, Fercho, Kelene A, Gregory, Chris M, Hadidchi, Shahram, Holguin, Jess A, Hwang, Darryl H, Jung, Simon, Kautz, Steven A, Khlif, Mohamed Salah, Khoshab, Nima, Kim, Bokkyu, Kim, Hosung, Kuceyeski, Amy, Lotze, Martin, MacIntosh, Bradley J, Margetis, John L, Mohamed, Feroze B, Piras, Fabrizio, Ramos-Murguialday, Ander, Richard, Geneviève, Roberts, Pamela, Robertson, Andrew D, Rondina, Jane M, Rost, Natalia S, Sanossian, Nerses, Schweighofer, Nicolas, Seo, Na Jin, Shiroishi, Mark S, Soekadar, Surjo R, Spalletta, Gianfranco, Stinear, Cathy M, Suri, Anisha, Tang, Wai Kwong W, Thielman, Gregory T, Vecchio, Daniela, Villringer, Arno, Ward, Nick S, Werden, Emilio, Westlye, Lars T, Winstein, Carolee, Wittenberg, George F, Wong, Kristin A, Yu, Chunshui, Cramer, Steven C, Thompson, Paul M, Liew, Sook-Lei, Liew, Sook-Lei, Zavaliangos-Petropulu, Artemis, Jahanshad, Neda, Lang, Catherine E, Hayward, Kathryn S, Lohse, Keith R, Juliano, Julia M, Assogna, Francesca, Baugh, Lee A, Bhattacharya, Anup K, Bigjahan, Bavrina, Borich, Michael R, Boyd, Lara A, Brodtmann, Amy, Buetefisch, Cathrin M, Byblow, Winston D, Cassidy, Jessica M, Conforto, Adriana B, Craddock, R Cameron, Dimyan, Michael A, Dula, Adrienne N, Ermer, Elsa, Etherton, Mark R, Fercho, Kelene A, Gregory, Chris M, Hadidchi, Shahram, Holguin, Jess A, Hwang, Darryl H, Jung, Simon, Kautz, Steven A, Khlif, Mohamed Salah, Khoshab, Nima, Kim, Bokkyu, Kim, Hosung, Kuceyeski, Amy, Lotze, Martin, MacIntosh, Bradley J, Margetis, John L, Mohamed, Feroze B, Piras, Fabrizio, Ramos-Murguialday, Ander, Richard, Geneviève, Roberts, Pamela, Robertson, Andrew D, Rondina, Jane M, Rost, Natalia S, Sanossian, Nerses, Schweighofer, Nicolas, Seo, Na Jin, Shiroishi, Mark S, Soekadar, Surjo R, Spalletta, Gianfranco, Stinear, Cathy M, Suri, Anisha, Tang, Wai Kwong W, Thielman, Gregory T, Vecchio, Daniela, Villringer, Arno, Ward, Nick S, Werden, Emilio, Westlye, Lars T, Winstein, Carolee, Wittenberg, George F, Wong, Kristin A, Yu, Chunshui, Cramer, Steven C, and Thompson, Paul M

Abstract

The goal of the Enhancing Neuroimaging Genetics through Meta-Analysis (ENIGMA) Stroke Recovery working group is to understand brain and behavior relationships using well-powered meta- and mega-analytic approaches. ENIGMA Stroke Recovery has data from over 2,100 stroke patients collected across 39 research studies and 10 countries around the world, comprising the largest multisite retrospective stroke data collaboration to date. This article outlines the efforts taken by the ENIGMA Stroke Recovery working group to develop neuroinformatics protocols and methods to manage multisite stroke brain magnetic resonance imaging, behavioral and demographics data. Specifically, the processes for scalable data intake and preprocessing, multisite data harmonization, and large-scale stroke lesion analysis are described, and challenges unique to this type of big data collaboration in stroke research are discussed. Finally, future directions and limitations, as well as recommendations for improved data harmonization through prospective data collection and data management, are provided.

Published
2022

2. Corticospinal Tract Lesion Load Originating From Both Ventral Premotor and Primary Motor Cortices Are Associated With Post-stroke Motor Severity.

Author

Ito, Kaori L, Ito, Kaori L, Kim, Bokkyu, Liu, Jingchun, Soekadar, Surjo R, Winstein, Carolee, Yu, Chunshui, Cramer, Steven C, Schweighofer, Nicolas, Liew, Sook-Lei, Ito, Kaori L, Ito, Kaori L, Kim, Bokkyu, Liu, Jingchun, Soekadar, Surjo R, Winstein, Carolee, Yu, Chunshui, Cramer, Steven C, Schweighofer, Nicolas, and Liew, Sook-Lei

Abstract

Lesion load of the corticospinal tract (CST-LL), a measure of overlap between a stroke lesion and the CST, is one of the strongest predictors of motor outcomes following stroke. CST-LL is typically calculated by using a probabilistic map of the CST originating from the primary motor cortex (M1). However, higher order motor areas also have projections that contribute to the CST and motor control. In this retrospective study, we examined whether evaluating CST-LL from additional motor origins is more strongly associated with post-stroke motor severity than using CST-LL originating from M1 only. We found that lesion load to both the ventral premotor (PMv) cortex and M1 were more strongly related to stroke motor severity indexed by Fugl-Meyer Assessment cut-off scores than CST-LL of M1 alone, suggesting that higher order motor regions add clinical relevance to motor impairment.

Published
2022

3. Smaller spared subcortical nuclei are associated with worse post-stroke sensorimotor outcomes in 28 cohorts worldwide.

Author

Liew, Sook-Lei, Liew, Sook-Lei, Zavaliangos-Petropulu, Artemis, Schweighofer, Nicolas, Jahanshad, Neda, Lang, Catherine E, Lohse, Keith R, Banaj, Nerisa, Barisano, Giuseppe, Baugh, Lee A, Bhattacharya, Anup K, Bigjahan, Bavrina, Borich, Michael R, Boyd, Lara A, Brodtmann, Amy, Buetefisch, Cathrin M, Byblow, Winston D, Cassidy, Jessica M, Charalambous, Charalambos C, Ciullo, Valentina, Conforto, Adriana B, Craddock, Richard C, Dula, Adrienne N, Egorova, Natalia, Feng, Wuwei, Fercho, Kelene A, Gregory, Chris M, Hanlon, Colleen A, Hayward, Kathryn S, Holguin, Jess A, Hordacre, Brenton, Hwang, Darryl H, Kautz, Steven A, Khlif, Mohamed Salah, Kim, Bokkyu, Kim, Hosung, Kuceyeski, Amy, Lo, Bethany, Liu, Jingchun, Lin, David, Lotze, Martin, MacIntosh, Bradley J, Margetis, John L, Mohamed, Feroze B, Nordvik, Jan Egil, Petoe, Matthew A, Piras, Fabrizio, Raju, Sharmila, Ramos-Murguialday, Ander, Revill, Kate P, Roberts, Pamela, Robertson, Andrew D, Schambra, Heidi M, Seo, Na Jin, Shiroishi, Mark S, Soekadar, Surjo R, Spalletta, Gianfranco, Stinear, Cathy M, Suri, Anisha, Tang, Wai Kwong, Thielman, Gregory T, Thijs, Vincent N, Vecchio, Daniela, Ward, Nick S, Westlye, Lars T, Winstein, Carolee J, Wittenberg, George F, Wong, Kristin A, Yu, Chunshui, Wolf, Steven L, Cramer, Steven C, Thompson, Paul M, ENIGMA Stroke Recovery Working Group, Liew, Sook-Lei, Liew, Sook-Lei, Zavaliangos-Petropulu, Artemis, Schweighofer, Nicolas, Jahanshad, Neda, Lang, Catherine E, Lohse, Keith R, Banaj, Nerisa, Barisano, Giuseppe, Baugh, Lee A, Bhattacharya, Anup K, Bigjahan, Bavrina, Borich, Michael R, Boyd, Lara A, Brodtmann, Amy, Buetefisch, Cathrin M, Byblow, Winston D, Cassidy, Jessica M, Charalambous, Charalambos C, Ciullo, Valentina, Conforto, Adriana B, Craddock, Richard C, Dula, Adrienne N, Egorova, Natalia, Feng, Wuwei, Fercho, Kelene A, Gregory, Chris M, Hanlon, Colleen A, Hayward, Kathryn S, Holguin, Jess A, Hordacre, Brenton, Hwang, Darryl H, Kautz, Steven A, Khlif, Mohamed Salah, Kim, Bokkyu, Kim, Hosung, Kuceyeski, Amy, Lo, Bethany, Liu, Jingchun, Lin, David, Lotze, Martin, MacIntosh, Bradley J, Margetis, John L, Mohamed, Feroze B, Nordvik, Jan Egil, Petoe, Matthew A, Piras, Fabrizio, Raju, Sharmila, Ramos-Murguialday, Ander, Revill, Kate P, Roberts, Pamela, Robertson, Andrew D, Schambra, Heidi M, Seo, Na Jin, Shiroishi, Mark S, Soekadar, Surjo R, Spalletta, Gianfranco, Stinear, Cathy M, Suri, Anisha, Tang, Wai Kwong, Thielman, Gregory T, Thijs, Vincent N, Vecchio, Daniela, Ward, Nick S, Westlye, Lars T, Winstein, Carolee J, Wittenberg, George F, Wong, Kristin A, Yu, Chunshui, Wolf, Steven L, Cramer, Steven C, Thompson, Paul M, and ENIGMA Stroke Recovery Working Group

Abstract

Up to two-thirds of stroke survivors experience persistent sensorimotor impairments. Recovery relies on the integrity of spared brain areas to compensate for damaged tissue. Deep grey matter structures play a critical role in the control and regulation of sensorimotor circuits. The goal of this work is to identify associations between volumes of spared subcortical nuclei and sensorimotor behaviour at different timepoints after stroke. We pooled high-resolution T1-weighted MRI brain scans and behavioural data in 828 individuals with unilateral stroke from 28 cohorts worldwide. Cross-sectional analyses using linear mixed-effects models related post-stroke sensorimotor behaviour to non-lesioned subcortical volumes (Bonferroni-corrected, P < 0.004). We tested subacute (≤90 days) and chronic (≥180 days) stroke subgroups separately, with exploratory analyses in early stroke (≤21 days) and across all time. Sub-analyses in chronic stroke were also performed based on class of sensorimotor deficits (impairment, activity limitations) and side of lesioned hemisphere. Worse sensorimotor behaviour was associated with a smaller ipsilesional thalamic volume in both early (n = 179; d = 0.68) and subacute (n = 274, d = 0.46) stroke. In chronic stroke (n = 404), worse sensorimotor behaviour was associated with smaller ipsilesional putamen (d = 0.52) and nucleus accumbens (d = 0.39) volumes, and a larger ipsilesional lateral ventricle (d = -0.42). Worse chronic sensorimotor impairment specifically (measured by the Fugl-Meyer Assessment; n = 256) was associated with smaller ipsilesional putamen (d = 0.72) and larger lateral ventricle (d = -0.41) volumes, while several measures of activity limitations (n = 116) showed no significant relationships. In the full cohort across all time (n = 828), sensorimotor behaviour was associated with the volumes of the ipsilesional nucleus accumbens (d = 0.23), putamen (d = 0.33), thalamus (d = 0.33) and lateral ventricle (d = -0.23). We demonstrate

Published
2021

4. A large, open source dataset of stroke anatomical brain images and manual lesion segmentations.

Author

Liew, Sook-Lei, Liew, Sook-Lei, Anglin, Julia M, Banks, Nick W, Sondag, Matt, Ito, Kaori L, Kim, Hosung, Chan, Jennifer, Ito, Joyce, Jung, Connie, Khoshab, Nima, Lefebvre, Stephanie, Nakamura, William, Saldana, David, Schmiesing, Allie, Tran, Cathy, Vo, Danny, Ard, Tyler, Heydari, Panthea, Kim, Bokkyu, Aziz-Zadeh, Lisa, Cramer, Steven C, Liu, Jingchun, Soekadar, Surjo, Nordvik, Jan-Egil, Westlye, Lars T, Wang, Junping, Winstein, Carolee, Yu, Chunshui, Ai, Lei, Koo, Bonhwang, Craddock, R Cameron, Milham, Michael, Lakich, Matthew, Pienta, Amy, Stroud, Alison, Liew, Sook-Lei, Liew, Sook-Lei, Anglin, Julia M, Banks, Nick W, Sondag, Matt, Ito, Kaori L, Kim, Hosung, Chan, Jennifer, Ito, Joyce, Jung, Connie, Khoshab, Nima, Lefebvre, Stephanie, Nakamura, William, Saldana, David, Schmiesing, Allie, Tran, Cathy, Vo, Danny, Ard, Tyler, Heydari, Panthea, Kim, Bokkyu, Aziz-Zadeh, Lisa, Cramer, Steven C, Liu, Jingchun, Soekadar, Surjo, Nordvik, Jan-Egil, Westlye, Lars T, Wang, Junping, Winstein, Carolee, Yu, Chunshui, Ai, Lei, Koo, Bonhwang, Craddock, R Cameron, Milham, Michael, Lakich, Matthew, Pienta, Amy, and Stroud, Alison

Abstract

Stroke is the leading cause of adult disability worldwide, with up to two-thirds of individuals experiencing long-term disabilities. Large-scale neuroimaging studies have shown promise in identifying robust biomarkers (e.g., measures of brain structure) of long-term stroke recovery following rehabilitation. However, analyzing large rehabilitation-related datasets is problematic due to barriers in accurate stroke lesion segmentation. Manually-traced lesions are currently the gold standard for lesion segmentation on T1-weighted MRIs, but are labor intensive and require anatomical expertise. While algorithms have been developed to automate this process, the results often lack accuracy. Newer algorithms that employ machine-learning techniques are promising, yet these require large training datasets to optimize performance. Here we present ATLAS (Anatomical Tracings of Lesions After Stroke), an open-source dataset of 304 T1-weighted MRIs with manually segmented lesions and metadata. This large, diverse dataset can be used to train and test lesion segmentation algorithms and provides a standardized dataset for comparing the performance of different segmentation methods. We hope ATLAS release 1.1 will be a useful resource to assess and improve the accuracy of current lesion segmentation methods.

Published
2018

5. A large, open source dataset of stroke anatomical brain images and manual lesion segmentations.

Author

Liew, Sook-Lei, Liew, Sook-Lei, Anglin, Julia M, Banks, Nick W, Sondag, Matt, Ito, Kaori L, Kim, Hosung, Chan, Jennifer, Ito, Joyce, Jung, Connie, Khoshab, Nima, Lefebvre, Stephanie, Nakamura, William, Saldana, David, Schmiesing, Allie, Tran, Cathy, Vo, Danny, Ard, Tyler, Heydari, Panthea, Kim, Bokkyu, Aziz-Zadeh, Lisa, Cramer, Steven C, Liu, Jingchun, Soekadar, Surjo, Nordvik, Jan-Egil, Westlye, Lars T, Wang, Junping, Winstein, Carolee, Yu, Chunshui, Ai, Lei, Koo, Bonhwang, Craddock, R Cameron, Milham, Michael, Lakich, Matthew, Pienta, Amy, Stroud, Alison, Liew, Sook-Lei, Liew, Sook-Lei, Anglin, Julia M, Banks, Nick W, Sondag, Matt, Ito, Kaori L, Kim, Hosung, Chan, Jennifer, Ito, Joyce, Jung, Connie, Khoshab, Nima, Lefebvre, Stephanie, Nakamura, William, Saldana, David, Schmiesing, Allie, Tran, Cathy, Vo, Danny, Ard, Tyler, Heydari, Panthea, Kim, Bokkyu, Aziz-Zadeh, Lisa, Cramer, Steven C, Liu, Jingchun, Soekadar, Surjo, Nordvik, Jan-Egil, Westlye, Lars T, Wang, Junping, Winstein, Carolee, Yu, Chunshui, Ai, Lei, Koo, Bonhwang, Craddock, R Cameron, Milham, Michael, Lakich, Matthew, Pienta, Amy, and Stroud, Alison

Abstract

Stroke is the leading cause of adult disability worldwide, with up to two-thirds of individuals experiencing long-term disabilities. Large-scale neuroimaging studies have shown promise in identifying robust biomarkers (e.g., measures of brain structure) of long-term stroke recovery following rehabilitation. However, analyzing large rehabilitation-related datasets is problematic due to barriers in accurate stroke lesion segmentation. Manually-traced lesions are currently the gold standard for lesion segmentation on T1-weighted MRIs, but are labor intensive and require anatomical expertise. While algorithms have been developed to automate this process, the results often lack accuracy. Newer algorithms that employ machine-learning techniques are promising, yet these require large training datasets to optimize performance. Here we present ATLAS (Anatomical Tracings of Lesions After Stroke), an open-source dataset of 304 T1-weighted MRIs with manually segmented lesions and metadata. This large, diverse dataset can be used to train and test lesion segmentation algorithms and provides a standardized dataset for comparing the performance of different segmentation methods. We hope ATLAS release 1.1 will be a useful resource to assess and improve the accuracy of current lesion segmentation methods.

Published
2018

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