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PsychENCODE generated large-scale data including genotyping, bulk and single-cell RNA-seq, ChIP-seq, ATAC-seq, and Hi-C.
“the PsychENCODE Consortium has generated large-scale data to provide insight into the brain and psychiatric disorders, including data derived through genotyping, bulk and single-cell RNA sequencing (RNA-seq), chromatin immunoprecipitation with sequencing (ChIP-seq), assay for transposase-accessible chromatin using sequencing (ATAC-seq), and Hi-C (17).”
From Comprehensive functional genomic resource and integrative model for the human brain (2018) · cites this paper as [17]
Postmortem brain data are valuable, and the PsychENCODE project brought more insights into the inflammation status of brains affected by SCZ, BD and ASD.
“Postmortem brain data are valuable, and the PsychENCODE project72 brought more insights into the inflammation status of brains affected by SCZ, BD and ASD.”
From Inflammation-related biomarkers in major psychiatric disorders: a cross-disorder assessment of reproducibility and specificity in 43 meta-analyses (2019) · cites this paper as [72]
Large-scale annotation projects such as the Roadmap Epigenomics Project, the Blueprint Project, and PsychENCODE aim to generate, and make publicly available, high-quality reference annotation maps across a wide variety of human cell and tissue types.
“This search has been facilitated by large-scale annotation projects such as the Roadmap Epigenomics Project [180], the Blueprint Project [181], and PsychENCODE [182]. These projects aim to generate, and make publicly available, high-quality reference annotation maps across a wide variety of human cell and tissue types.”
From Genetic architecture of Alzheimer's disease (2020) · cites this paper as [182]
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Self-citation
- Authors
- Akbarian, S., Liu, C., Knowles, J. A., Vaccarino, F. M., Farnham, P. J., Crawford, G. E., Jaffe, A. E., Pinto, D., Dracheva, S., Geschwind, D. H., Mill, J., Nairn, A. C., Abyzov, A., Pochareddy, S., Prabhakar, S., Weissman, S., Sullivan, P. F., State, M. W., Weng, Z., Peters, M. A., White, K. P., Gerstein, M. B., Amiri, A., Armoskus, C., Ashley-Koch, A. E., Bae, T., Beckel-Mitchener, A., Berman, B. P., Coetzee, G. A., Coppola, G., Francoeur, N., Fromer, M., Gao, R., Grennan, K., Herstein, J., Kavanagh, D. H., Ivanov, N. A., Jiang, Y., Kitchen, R. R., Kozlenkov, A., Kundakovic, M., Li, M., Li, Z., Liu, S., Mangravite, L. M., Mattei, E., Markenscoff-Papadimitriou, E., Navarro, F. C. P., North, N., Omberg, L., Panchision, D., Parikshak, N., Poschmann, J., Price, A. J., Purcaro, M., Reddy, T. E., Roussos, P., Schreiner, S., Scuderi, S., Sebra, R., Shibata, M., Shieh, A. W., Skarica, M., Sun, W., Swarup, V., Thomas, A., Tsuji, J., van Bakel, H., Wang, D., Wang, Y., Wang, K., Werling, D. M., Willsey, A. J., Witt, H., Won, H., Wong, C. C. Y., Wray, G. A., Wu, E. Y., Xu, X., Yao, L., Senthil, G., Lehner, T., Sklar, P., & Sestan, N.
- Affiliations
- Icahn School of Medicine at Mount Sinai (US)
- University of Illinois Chicago (US)
- University of Southern California (US)
- Yale University (US)
- Duke University (US)
- Lieber Institute for Brain Development (US)
- University of California, Los Angeles (US)
- King's College London (GB)
- Mayo Clinic (US)
- Genome Institute of Singapore (SG)
- University of North Carolina at Chapel Hill (US)
- University of California, San Francisco (US)
- University of Massachusetts Chan Medical School (US)
- Sage Bionetworks (US)
- University of Chicago (US)
- National Institute of Mental Health (US)
- Corresponding author
- Senthil, Geetha
- Lehner, Thomas
- Sklar, Pamela
- ORCID
- Akbarian, Schahram
- Liu, Chunyu
- Knowles, James A
- Vaccarino, Flora M
- Farnham, Peggy J
- Crawford, Gregory E
- Jaffe, Andrew E
- Pinto, Dalila
- Dracheva, Stella
- Geschwind, Daniel H
- Mill, Jonathan
- Nairn, Angus C
- Abyzov, Alexej
- Pochareddy, Sirisha
- Prabhakar, Shyam
- Sullivan, Patrick F
- State, Matthew W
- Weng, Zhiping
- Peters, Mette A
- White, Kevin P
- Gerstein, Mark B
- Amiri, Anahita
- Armoskus, Chris
- Bae, Taejeong
- Beckel-Mitchener, Andrea
- Berman, Benjamin P
- Coetzee, Gerhard A
- Coppola, Gianfilippo
- Francoeur, Nancy
- Fromer, Menachem
- Ivanov, Nikolay A
- Jiang, Yan
- Kitchen, Robert R
- Kozlenkov, Alexey
- Li, Mingfeng
- Li, Zhen
- Liu, Shuang
- Mangravite, Lara M
- Mattei, Eugenio
- Markenscoff-Papadimitriou, Eirene
- Navarro, Fábio C P
- Omberg, Larsson
- Parikshak, Neelroop
- Price, Amanda J
- Purcaro, Michael
- Reddy, Timothy E
- Roussos, Panos
- Schreiner, Shannon
- Scuderi, Soraya
- Sebra, Robert
- Shibata, Mikihito
- Shieh, Annie W
- Swarup, Vivek
- Tsuji, Junko
- Wang, Daifeng
- Wang, Yongjun
- Werling, Donna M
- Willsey, A Jeremy
- Witt, Heather
- Won, Hyejung
- Wong, Chloe C Y
- Wray, Gregory A
- Xu, Xuming
- Senthil, Geetha
- Lehner, Thomas
- Sklar, Pamela
- Venue
- Nature Neuroscience
- Published
- 2015-11-25
- Volume
- 18
- Issue
- 12
- Pages
- 1707-1712
- ISSN
- 1097-6256 (ISSN-L)
- 1546-1726
- PMC
- PMC4675669
- OpenAlex
- W2173304983
- Cited by
- 451
- References
- 50
- Citations by year
- 2026: 32 · 2025: 37 · 2024: 44 · 2023: 50 · 2022: 45 · 2021: 45 · 2020: 47 · 2019: 46 · 2018: 45 · 2017: 25 · 2016: 28 · 2015: 4 · 2014: 2
- FWCI
- 3.29
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Nature Neuroscience (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- eScholarship (California Digital Library) (submittedVersion)
- Research Portal (King's College London) (submittedVersion)
- Funders
- U.S. Department of Veterans Affairs (I01BX002395)
- National Institutes of Health (5r01mh094714-04)
- National Institute on Aging (R01AG050986)
- National Institute of Mental Health (U01MH103339, R01-MH094714, R21MH105881, P50MH096890, R21MH105853, U01MH103365, U01MH103340, P50MH106934, U01MH103392, R21MH103877)
- National Institute of General Medical Sciences (T32GM107000)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Associations and Epidemiology
- Health Sciences › Medicine › Psychiatry and Mental health › Schizophrenia research and treatment
- Keywords
- PsychENCODE, mental illness, postmortem brain, gene expression regulation, chromatin modification, regulatory variants, autism spectrum disorder, bipolar disorder, schizophrenia, brain development
- MeSH terms
- Animals, Mental Disorders, Brain, Chromosome Mapping, Genetic Code, Humans, Epigenesis, Genetic, Transcriptome
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