Dream: powerful differential expression analysis for repeated measures designs von Hoffman, Gabriel E, Roussos, Panos

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variancePartition: interpreting drivers of variation in complex gene expression studies von Hoffman, Gabriel E, Schadt, Eric E

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Correcting for population structure and kinship using the linear mixed model: theory and extensions von Hoffman, Gabriel E

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New considerations for hiPSC-based models of neuropsychiatric disorders von Hoffman, Gabriel E., Schrode, Nadine, Flaherty, Erin, Brennand, Kristen J.

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Multi-ancestry eQTL meta-analysis of human brain identifies candidate causal variants for brain-related traits von Zeng, Biao, Bendl, Jaroslav, Kosoy, Roman, Fullard, John F., Hoffman, Gabriel E., Roussos, Panos

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Transcriptional signatures of schizophrenia in hiPSC-derived NPCs and neurons are concordant with post-mortem adult brains von Hoffman, Gabriel E., Hartley, Brigham J., Flaherty, Erin, Ladran, Ian, Gochman, Peter, Ruderfer, Douglas M., Stahl, Eli A., Rapoport, Judith, Sklar, Pamela, Brennand, Kristen J.

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Synergistic effects of common schizophrenia risk variants von Schrode, Nadine, Ho, Seok-Man, Yamamuro, Kazuhiko, Dobbyn, Amanda, Huckins, Laura, Matos, Marliette R., Cheng, Esther, Deans, P. J. Michael, Flaherty, Erin, Barretto, Natalie, Topol, Aaron, Alganem, Khaled, Abadali, Sonya, Gregory, James, Hoelzli, Emily, Phatnani, Hemali, Singh, Vineeta, Girish, Deeptha, Aronow, Bruce, Mccullumsmith, Robert, Hoffman, Gabriel E., Stahl, Eli A., Morishita, Hirofumi, Sklar, Pamela, Brennand, Kristen J.

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Four loci explain 83% of size variation in the horse von Makvandi-Nejad, Shokouh, Hoffman, Gabriel E, Allen, Jeremy J, Chu, Erin, Gu, Esther, Chandler, Alyssa M, Loredo, Ariel I, Bellone, Rebecca R, Mezey, Jason G, Brooks, Samantha A, Sutter, Nathan B

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Genetics of the human microglia regulome refines Alzheimer’s disease risk loci von Kosoy, Roman, Fullard, John F., Zeng, Biao, Bendl, Jaroslav, Dong, Pengfei, Rahman, Samir, Kleopoulos, Steven P., Shao, Zhiping, Girdhar, Kiran, Humphrey, Jack, de Paiva Lopes, Katia, Charney, Alexander W., Kopell, Brian H., Raj, Towfique, Bennett, David, Kellner, Christopher P., Haroutunian, Vahram, Hoffman, Gabriel E., Roussos, Panos

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Functional interpretation of genetic variants using deep learning predicts impact on chromatin accessibility and histone modification von Hoffman, Gabriel E, Bendl, Jaroslav, Girdhar, Kiran, Schadt, Eric E, Roussos, Panos

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Analysis of Transcriptional Variability in a Large Human iPSC Library Reveals Genetic and Non-genetic Determinants of Heterogeneity von Carcamo-Orive, Ivan, Hoffman, Gabriel E., Cundiff, Paige, Beckmann, Noam D., D’Souza, Sunita L., Knowles, Joshua W., Patel, Achchhe, Papatsenko, Dimitri, Abbasi, Fahim, Reaven, Gerald M., Whalen, Sean, Lee, Philip, Shahbazi, Mohammad, Henrion, Marc Y.R., Zhu, Kuixi, Wang, Sven, Roussos, Panos, Schadt, Eric E., Pandey, Gaurav, Chang, Rui, Quertermous, Thomas, Lemischka, Ihor

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Integrative transcriptome imputation reveals tissue-specific and shared biological mechanisms mediating susceptibility to complex traits von Zhang, Wen, Voloudakis, Georgios, Rajagopal, Veera M., Readhead, Ben, Dudley, Joel T., Schadt, Eric E., Björkegren, Johan L. M., Kim, Yungil, Fullard, John F., Hoffman, Gabriel E., Roussos, Panos

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Convergence of the dysregulated regulome in schizophrenia with polygenic risk and evolutionarily constrained enhancers von Dong, Pengfei, Voloudakis, Georgios, Fullard, John F., Hoffman, Gabriel E., Roussos, Panos

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A variational Bayes algorithm for fast and accurate multiple locus genome-wide association analysis von Logsdon, Benjamin A, Hoffman, Gabriel E, Mezey, Jason G

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Cell-specific histone modification maps in the human frontal lobe link schizophrenia risk to the neuronal epigenome von Girdhar, Kiran, Hoffman, Gabriel E., Jiang, Yan, Brown, Leanne, Kundakovic, Marija, Hauberg, Mads E., Francoeur, Nancy J., Wang, Ying-chih, Shah, Hardik, Kavanagh, David H., Zharovsky, Elizabeth, Jacobov, Rivka, Wiseman, Jennifer R., Park, Royce, Johnson, Jessica S., Kassim, Bibi S., Sloofman, Laura, Mattei, Eugenio, Weng, Zhiping, Sieberts, Solveig K., Peters, Mette A., Harris, Brent T., Lipska, Barbara K., Sklar, Pamela, Roussos, Panos, Akbarian, Schahram

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Single-nucleus transcriptome analysis of human brain immune response in patients with severe COVID-19 von Fullard, John F, Lee, Hao-Chih, Voloudakis, Georgios, Suo, Shengbao, Javidfar, Behnam, Shao, Zhiping, Peter, Cyril, Zhang, Wen, Jiang, Shan, Corvelo, André, Wargnier, Heather, Woodoff-Leith, Emma, Purohit, Dushyant P, Ahuja, Sadhna, Tsankova, Nadejda M, Jette, Nathalie, Hoffman, Gabriel E, Akbarian, Schahram, Fowkes, Mary, Crary, John F, Yuan, Guo-Cheng, Roussos, Panos

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Chromatin accessibility provides a window into the genetic etiology of human brain disease von Bendl, Jaroslav, Fullard, John F., Girdhar, Kiran, Dong, Pengfei, Kosoy, Roman, Zeng, Biao, Hoffman, Gabriel E., Roussos, Panos

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decorate: differential epigenetic correlation test von Hoffman, Gabriel E, Bendl, Jaroslav, Girdhar, Kiran, Roussos, Panos

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Neuron-specific signatures in the chromosomal connectome associated with schizophrenia risk von Rajarajan, Prashanth, Borrman, Tyler, Liao, Will, Schrode, Nadine, Flaherty, Erin, Casiño, Charlize, Powell, Samuel, Yashaswini, Chittampalli, LaMarca, Elizabeth A, Kassim, Bibi, Javidfar, Behnam, Espeso-Gil, Sergio, Li, Aiqun, Won, Hyejung, Geschwind, Daniel H, Ho, Seok-Man, MacDonald, Matthew, Hoffman, Gabriel E, Roussos, Panos, Zhang, Bin, Hahn, Chang-Gyu, Weng, Zhiping, Brennand, Kristen J, Akbarian, Schahram

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A multi-regional human brain atlas of chromatin accessibility and gene expression facilitates promoter-isoform resolution genetic fine-mapping von Dong, Pengfei, Song, Liting, Bendl, Jaroslav, Misir, Ruth, Shao, Zhiping, Edelstien, Jonathan, Davis, David A., Haroutunian, Vahram, Scott, William K., Acker, Susanne, Lawless, Nathan, Hoffman, Gabriel E., Fullard, John F., Roussos, Panos

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