The DOI matches its Crossref record; 136 of the 138 references it cites were found in a registry or an index.
From trans to cis: transcriptional regulatory networks in neocortical development
Open accessAbstract
Transcriptional mechanisms mediated by the binding of transcription factors (TFs) to cis-acting regulatory elements (CREs) in DNA play crucial roles in directing gene expression. While TFs have been extensively studied, less effort has gone towards the identification and functional characterization of CREs and associated epigenetic modulation. However, owing to methodological and analytical advances, more comprehensive studies of regulatory elements and mechanisms are now possible. We summarize recent progress in integrative analyses of these regulatory components in the development of the cerebral neocortex, the part of the brain involved in cognition and complex behavior. These studies are uncovering not only the underlying transcriptional regulatory networks, but also how these networks are altered across species and in neurological and psychiatric disorders.
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“In 12-year-olds, the path length of resting-state networks has a heritability of 42%155.”
From Imaging structural and functional brain development in early childhood (2018) · cites this paper as [155]
In the citing paper
“Comparative genomic studies have shown that many of the genes encoding transcription factors and associated regulatory networks involved in the specification and differentiation of different subtypes of neurons and glia are highly conserved across mammals (Nord et al., 2015; Shibata et al., 2015).”
From The Cellular and Molecular Landscapes of the Developing Human Central Nervous System (2016) · cites this paper as Shibata et al., 2015
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“The spatio-temporal patterns of gene expression discussed above are achieved through complex regulatory processes involving several players that function in a combinatorial way (Nord et al., 2015; Shibata et al., 2015).”
From The Cellular and Molecular Landscapes of the Developing Human Central Nervous System (2016) · cites this paper as Shibata et al., 2015
In the citing paper
“For instance, many of the genes previously implicated in the generation and specification of distinct subtypes of cortical projection neurons (Leone et al., 2008; Molyneaux et al., 2007; Shibata et al., 2015) and interneurons (Southwell et al., 2014) have well conserved expression gradients and domains among neural stem/progenitor cells in the VZ/SVZ or neurons in the SP and CP (Bayatti et al., 2”
From The Cellular and Molecular Landscapes of the Developing Human Central Nervous System (2016) · cites this paper as Shibata et al., 2015
In the citing paper
“Epigenetic mechanisms, acting in concert with trans- and cis-components of the regulatory circuitry, play a critical role in regulating spatio-temporal expression patterns (Maze et al., 2014; Nord et al., 2015; Shibata et al., 2015).”
From The Cellular and Molecular Landscapes of the Developing Human Central Nervous System (2016) · cites this paper as Shibata et al., 2015
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Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes
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Perillo, J. T. (2018) · Oxford University Press eBooks · doi:10.1093/oxfordhb/9780198736578.013.21
(2018) · Oxford University Press eBooks · doi:10.1093/oxfordhb/9780198736578.002.0004
(2018) · Oxford University Press eBooks · doi:10.1093/oxfordhb/9780198736578.002.0007
(2018) · Oxford University Press eBooks · doi:10.1093/oxfordhb/9780198736578.002.0006
Developmental and Evolutionary Origins of Cortical Projection Neuron Identity and Connectivity
Kaur, N., Kovner, R., Gobeske, K. T., & Šestan, N. (2023) · Wiley eBooks · doi:10.1002/9781119860914.ch13
Özkan, A., Padmanabhan, H. K., Shipman, S. L., Azim, E., Kumar, P., Sadegh, C., Başak, A. N., & Macklis, J. D. (2026) · eLife · doi:10.1101/2024.04.21.590488
Özkan, A., Padmanabhan, H. K., Shipman, S. L., Azim, E., Kumar, P., Sadegh, C., Başak, A. N., & Macklis, J. D. (2024) · eLife · doi:10.7554/elife.100340.1
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Miao, Z., Fang, Z., Shi, X., Zeng, Y., Wu, T., Zheng, R., & Li, M. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.01.31.702983
Metadata
- Authors
- Shibata, M., Gulden, F. O., & Sestan, N.
- Affiliations
- Yale University (US)
- Venue
- Trends in Genetics
- Publisher
- Elsevier BV
- Published
- 2015-02
- Volume
- 31
- Issue
- 2
- Pages
- 77-87
- ISSN
- 0168-9525 (ISSN-L)
- PMC
- PMC4382006
- OpenAlex
- W2113267995
- Cited by
- 109
- References
- 138
- Citations by year
- 2026: 4 · 2025: 3 · 2024: 6 · 2023: 6 · 2022: 5 · 2021: 3 · 2020: 5 · 2019: 7 · 2018: 57 · 2017: 7 · 2016: 3 · 2015: 3
- FWCI
- 2.26
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Trends in Genetics (publishedVersion)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- Funders
- National Institutes of Health
- National Institute of Mental Health (U01MH103339, P50MH106934, U01MH081896, U01MH105972)
- National Institute of Neurological Disorders and Stroke (R01NS054273)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Developmental Biology and Gene Regulation
- Keywords
- transcriptional regulatory networks, cis-regulatory elements, transcription factors, neocortex development, epigenetic regulation, gene expression regulation, species differences, neurological disorders, mental illness
- MeSH terms
- Animals, Mental Disorders, Cell Differentiation, Cell Movement, Gene Expression Regulation, Humans, Nerve Net, Nervous System Diseases, Neuroglia, Neurons, Regulatory Sequences, Nucleic Acid, Transcription, Genetic, Neocortex, Regulatory Elements, Transcriptional, Gene Regulatory Networks, Neurogenesis
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