Publications

Neuroscience, Machine Learning  

"Stress vulnerability and resilience in children facing COVID-19-related discrimination: a quasi-experimental study using polygenic, brain, and sociodemographic data", Jinwoo Yi, Eunji Lee, Bo-Gyeom Kim, Gakyung Kim, Yoonjung Yoonie Joo, Jiook Cha, MedRxiv [paper]

Machine Learning  

"White matter diffusion estimates in obsessive-compulsive disorder across 1653 individuals: machine learning findings from the ENIGMA OCD Working Group", Bo-Gyeom Kim*, Gakyung Kim*, ... , Jiook Cha, Molecular Psychiatry (*co-first author)

Machine Learning  

"AesFA: An Aesthetic Feature-Aware Arbitrary Neural Style Transfer", Joonwoo Kwon*, Sooyoung Kim*, Yuewei Lin, Shinjae Yoo, Jiook Cha, AAAI (*co-first author) [paper] [code]

Neuroscience, Genetics, Development

"Early life stress modulates the genetic influence on brain structure and cognitive function in children" Wang, H. H., Moon, S. Y., Kim, H., Kim, G., Ahn, W. Y., Joo, Y. Y., & Cha, J. (2024) Heliyon.

Neuroscience, Machine Learning  "SwiFT: Swin 4D fMRI Transformer", Peter Yongho Kim*, Junbeom Kwon*, Sunghwan Joo, Sangyoon Bae, Donggyu Lee, Yoonho Jung, Shinjae Yoo, Jiook Cha, Taesup Moon, Neurips (*co-first author) [paper] [code]

Gene, Development  "Gene-Environment Pathways to Cognitive Development and Psychotic-Like Experiences in Children", Park, J., Lee, E., Cho, G., Hwang, H., Joo, Y. Y., & Cha, J, eLife. [paper] [code]

Neuroscience, Gene, Machine Learning   "Multivariate patterns between brain network properties, polygenic scores, phenotypes, and environment in preadolescents", Jungwoo Seo, Eunji Lee, Bo-gyeom Kim, Gakyung Kim, Yoonjung Yoonie Joo, Jiook Cha, medRxiv. [paper] [code]

Neuro, Gene "Identifying Gene, the Sexual Brain, and Cognition: Machine-Predicted Brain Sex Score Explains Individual Differences in Cognitive Development and Genetic Influence." Kim K, Joo YY, Ahn G, Wang HH, Moon SY, Kim H, Ahn WY, Cha J*. Human Brain Mapping. 2022. [paper]  

Gene "Association of genome-wide polygenic scores for multiple psychiatric and common traits in preadolescent youths at risk of suicide." Joo YY, Moon SY, Wang HH, Kim H, Lee EJ, Kim JH, Posner J, Ahn WY, Choi I, Kim JW, Cha J*. JAMA network open. 2022. PDF 

Gene "Cognitive Capacity Genome-Wide Polygenic Scores Identify Individuals with Slower Cognitive Decline in Aging." Joo YY, Cha J, Freese J, Hayes MG. Genes 2022. PDF

Neuroscience, Genetics, Machine Learning, Development "Heterogeneity in the Effects of Neighborhood Deprivation on Economic Decision Making and Mental Health in Children" Park, J., Cho, M., Lee, E., Kim, B.G., Kim, G., Joo, Y.Y. and Cha, J., 2023. medRxiv PDF

Neuro, ML "Maturity of gray matter structures and white matter connectomes, and their relationship with psychiatric symptoms in youth." Luna A, Bernanke J, Kim K, Aw N, Dworkin JD, Cha J*, Posner J. Human Brain Mapping. 2021. PDF

Neuro, ML "Identifying prepubertal children with risk for suicide using deep neural network trained on multimodal brain imaging." Ahn, G., Kim, B., Kim, K. K., Kim, H., Lee, E., Ahn, W. Y., ... & Cha, J. In AI for Disease Surveillance and Pandemic Intelligence: Intelligent Disease Detection in Action. 2022 Cham: Springer International Publishing. PDF

Neuro, ML "Alzheimer’s Disease Neuroimaging Initiative. GANBERT: Generative Adversarial Networks with Bidirectional Encoder Representations from Transformers for MRI to PET synthesis."  Shin HC, Ihsani A, Mandava S, Sreenivas ST, Forster C, Cha J, arXiv preprint arXiv:2008.04393. 2020 Aug 10. PDF

Neuro, ML "Alzheimer’s Disease Neuroimaging Initiative. GANDALF: Generative Adversarial Networks with Discriminator-Adaptive Loss Fine-Tuning for Alzheimer’s Disease Diagnosis from MRI." Shin HC, Ihsani A, Xu Z, Mandava S, Sreenivas ST, Forster C, Cha J, InInternational Conference on Medical Image Computing and Computer-Assisted Intervention 2020 Oct 4 (pp. 688-697). Springer, Cham. PDF

Neuro "Altered dentate gyrus microstructure in individuals at high familial risk for depression predicts future symptoms." van Dijk MT, Cha J, Semanek D, Aw N, Gameroff MJ, Abraham E, Wickramaratne PJ, Weissman MM, Posner J, Talati A. Biological Psychiatry: Cognitive Neuroscience and Neuroimaging (2020). PDF 

ML "Machine Learning Prediction of Incidence of Alzheimer’s Disease Using Large-Scale Administrative Health Data." Park JH, Cho HE, Kim JH, Wall M, Stern Y, Lim H, Yoo S, Kim HS, Cha J*. npj Digital Medicine (accepted) PDF

Neuro, Genetics "Differences in brain structure and function in children with the FTO obesity risk allele." Lugo‐Candelas, C., Pang, Y., Lee, S., Cha, J., Hong, S., Ranzenhofer, L., ... & Chung, W. K. (2020). Obesity Science & Practice, 6(4), 409-424. PDF

Neuro, Dev "Concordance in parent and offspring cortico-basal ganglia white matter connectivity varies by parental history of major depressive disorder and early parental care." Abraham, E., Posner, J., Wickramaratne, P. J., Aw, N., van Dijk, M. T., Cha, J., ... & Talati, A. (2020). Social Cognitive and Affective Neuroscience, 15(8), 889-903. PDF

Neuro, ML "Diagnosis and prognosis of Alzheimer's disease using brain morphometry and white matter connectomes", Wang Y, Xu C, Park J-H, Lee S, Stern Y, Yoo S, Kim JH, Kim HS, Cha J*. NeuroImage: Clinical. 2019.

Neuro, ML "Structural neural markers of response to cognitive behavioral therapy in pediatric obsessive compulsive disorder.", Pagliaccio D, Cha J, He X, Cyr M, Yanes‐Lukin P, Goldberg P, Fontaine M, Rynn MA, Marsh R. Journal of Child Psychology and Psychiatry. 2019. PDF

Neuro "Altered white matter microstructural organization in posttraumatic stress disorder across 3047 adults: results from the PGC-ENIGMA PTSD" , Dennis EL, Disner SG, Fani N, Salminen LE, Logue M, Clarke EK, Haswell CC, Averill CL, Baugh LA, Bomyea J, ..., Bruce SE. "consortium." Molecular Psychiatry. 2019. PDF

Neuro, Dev "Associations between brain structure and connectivity in infants and exposure to selective serotonin reuptake inhibitors during pregnancy.", Lugo-Candelas C, Cha J*, Hong S, Bastidas V, Weissman M, Fifer WP, Myers M, Talati A, Bansal R, Peterson BS. JAMA pediatrics. 2018 .

Neuro, Dev "Effects of serotonin transporter gene variation on impulsivity mediated by default mode network: a family study of depression.", Cha J*, Guffanti G, Gingrich J, Talati A, Wickramaratne P, Weissman M, Posner J. Cerebral Cortex. 2018 

Neuro "From anxious to reckless: a control systems approach unifies prefrontal-limbic regulation across the spectrum of threat detection", Mujica-Parodi LR, Cha J, Gao J. Frontiers in systems neuroscience. 2017 

Neuro, Dev "Effects of serotonin transporter gene variation on impulsivity mediated by default mode network: a family study of depression.", Cha J*, Guffanti G, Gingrich J, Talati A, Wickramaratne P, Weissman M, Posner J. Cerebral Cortex. 2018 

Neuro Posner J, Cha J, Wang Z, Talati A, Warner V, Gerber A, Peterson BS, Weissman M. "Increased default mode network connectivity in individuals at high familial risk for depression". Neuropsychopharmacology. 2016

Neuro, Dev Posner J, Cha J, Roy A, Peterson B, Bansal R, Gustafsson H, Raffanello E, Gingrich J, Monk C. "Alterations in amygdala–prefrontal circuits in infants exposed to prenatal maternal depression". Translational psychiatry. 2016 

Neuro Cha J*, Ide JS, Bowman FD, Simpson HB, Posner J, Steinglass JE. "Abnormal reward circuitry in anorexia nervosa: A longitudinal, multimodal MRI study". Human brain mapping. 2016 

Neuro Cha J, Greenberg T, Song I, Blair Simpson H, Posner J, Mujica‐Parodi LR. "Abnormal hippocampal structure and function in clinical anxiety and comorbid depression". Hippocampus. 2016 

Neuro Cha J, DeDora D, Nedic S, Ide J, Greenberg T, Hajcak G, Mujica-Parodi LR. "Clinically anxious individuals show disrupted feedback between inferior frontal gyrus and prefrontal-limbic control circuit". Journal of Neuroscience. 2016 

Neuro Carlson JM, Cha J, Fekete T, Greenberg T, Mujica-Parodi LR. "Left medial orbitofrontal cortex volume correlates with skydive-elicited euphoric experience". Brain Structure and Function. 2016 

Neuro Biezonski D, Shah R, Krivko A, Cha J, Guilfoyle D, Hrabe J, Gerum S, Xie S, Duan Y, Bansal R. "Longitudinal magnetic resonance imaging reveals striatal hypertrophy in a rat model of long-term stimulant treatment". Translational psychiatry. 2016 

Neuro Biezonski D, Cha J, Steinglass J, Posner J. "Evidence for thalamocortical circuit abnormalities and associated cognitive dysfunctions in underweight individuals with anorexia nervosa". Neuropsychopharmacology. 2016 

Neuro Greenberg T, Carlson JM, Rubin D, Cha J, Mujica-Parodi L. "Anticipation of high arousal aversive and positive movie clips engages common and distinct neural substrates". Social cognitive and affective neuroscience. 2015 

Neuro, ML Cha J*, Fekete T, Siciliano F, Biezonski D, Greenhill L, Pliszka SR, Blader JC, Roy AK, Leibenluft E, Posner J. "Neural correlates of aggression in medication-naive children with ADHD: multivariate analysis of morphometry and tractography". Neuropsychopharmacology. 2015 

Neuro Mujica-Parodi LR, Carlson JM, Cha J, Rubin D. "The fine line between ‘brave’and ‘reckless’: amygdala reactivity and regulation predict recognition of risk". Neuroimage. 2014 

Neuro Fekete T, Beacher FD, Cha J, Rubin D, Mujica-Parodi LR. "Small-world network properties in prefrontal cortex correlate with predictors of psychopathology risk in young children: A NIRS study". NeuroImage. 2014 

Neuro Cha J, Greenberg T, Carlson JM, DeDora DJ, Hajcak G, Mujica-Parodi LR. "Circuit-Wide Structural and Functional Measures Predict Ventromedial Prefrontal Cortex Fear Generalization: Implications for Generalized Anxiety Disorder". The Journal of Neuroscience. 2014 

Neuro Cha J, Carlson JM, DeDora DJ, Greenberg T, Proudfit GH, Mujica-Parodi LR. "Hyper-reactive human ventral tegmental area and aberrant mesocorticolimbic connectivity in overgeneralization of fear in generalized anxiety disorder". Journal of Neuroscience. 2014 

Neuro Carlson JM*, Cha J*, Harmon-Jones E, Mujica-Parodi LR, Hajcak G. "Influence of the BDNF genotype on amygdalo-prefrontal white matter microstructure is linked to nonconscious attention bias to threat". Cerebral Cortex. 2014 

Neuro Greenberg T, Carlson JM, Cha J, Hajcak G, Mujica‐Parodi LR. "Ventromedial prefrontal cortex reactivity is altered in generalized anxiety disorder during fear generalization". Depression and anxiety. 2013 

Neuro Greenberg T, Carlson JM, Cha J, Hajcak G, Mujica-Parodi LR. "Neural reactivity tracks fear generalization gradients". Biological psychology. 2013

Neuro Carlson JM, Cha J, Mujica-Parodi LR. "Functional and structural amygdala–anterior cingulate connectivity correlates with attentional bias to masked fearful faces". Cortex. 2013 

Neuro Cha J, Kim H-L, Pan F, Chun M-H, Massey SC, Kim I-B. "Variety of horizontal cell gap junctions in the rabbit retina". Neuroscience letters. 2012