Decoding human gene expression signatures in the brain

Wang, Guang Zhong; Konopka, Genevieve

doi:10.4161/trns.24885

Cited by 9 publications

(7 citation statements)

References 77 publications

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“…Seminal work in neuroimaging over the last decade has revealed that human brain activity can be defined by its network properties (Buckner and Krienen, 2013; Goni et al, 2014; Power et al, 2011; Sporns, 2013). Differences in gene regulation and expression have also been related to brain function in many species (Barchuk et al, 2007; Chandrasekaran et al, 2011; O’Connell and Hofmann, 2011) and to the evolution of human higher cognitive functions (Geschwind and Rakic, 2013; Konopka et al, 2012; Wang and Konopka, 2013). Here, we link these diverse levels of analysis by asking whether gene expression in human neocortex is correlated to a property of human functional networks defined by fMRI (Figure 1A).…”

Section: Introductionmentioning

confidence: 99%

Correspondence between Resting-State Activity and Brain Gene Expression

Wang

Belgard

Mao

et al. 2015

Neuron

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118

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SUMMARY The relationship between functional brain activity and gene expression has not been fully explored in the human brain. Here, we identify significant correlations between gene expression in the brain and functional activity by comparing fractional Amplitude of Low Frequency Fluctuations (fALFF) from two independent human fMRI resting state datasets to regional cortical gene expression from a newly generated RNA-seq dataset and two additional gene expression datasets to obtain robust and reproducible correlations. We find significantly more genes correlated with fALFF than expected by chance, and identify specific genes correlated with the imaging signals in multiple expression datasets in the default mode network. Together, these data support a population-level relationship between regional steady state brain gene expression and resting state brain activity.

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Section: Introductionmentioning

confidence: 99%

Correspondence between Resting-State Activity and Brain Gene Expression

Wang

Belgard

Mao

et al. 2015

Neuron

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118

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“…Brain development is a highly complex, dynamic, and multistage process that involves precisely sequential cellular and molecular events based on the coordinated expression of many genes (Silbereis et al, 2016;Wang and Konopka, 2013). A major challenge is identifying core genes during each of these events.…”

Section: Discussionmentioning

confidence: 99%

Transcriptional networks identify synaptotagmin-like 3 as a regulator of cortical neuronal migration during early neurodevelopment

Dong¹,

Yang²,

Liu³

et al. 2021

Cell Reports

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“…Brain development is a multistage process, accompanied by coordinated expression of many genes (G.-Z. Wang and Konopka, 2013). Thanks to availability of spatiotemporal transcriptome of the human brain by BrainSpan (www.brainspan.org); in this study, we investigated to find biological processes as well as signaling pathways, correspondingly involved in the development of PFC of human brain.…”

Section: Discussionmentioning

confidence: 99%

Identification of the Molecular Events Involved in the Development of Prefrontal Cortex Through the Analysis of RNA-Seq Data From BrainSpan

et al. 2019

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Human brain development is a complex process that follows sequential orchestration of gene expression, begins at conceptual stages, and continues into adulthood. Altered profile of gene expression drives many cellular and molecular events required for development. Here, the molecular events during development of human prefrontal cortex (PFC) (as an important executive part of the brain) were investigated. First, the RNA-sequencing data of BrainSpan were used to obtain differentially expressed genes between each two developmental stages and then, the relevant biological processes and signaling pathways were deduced by gene set enrichment analysis. In addition, the changes in transcriptome landscape of PFC during development were analyzed and the potential biological processes underlie the changes were found. Comparison of the four regions of PFC based on their biological processes showed that additional to common biological processes and signaling pathways, each PFC region had its own molecular characteristics, conforming their previously reported functional roles in brain physiology. The most heterogeneity in transcriptome between the PFC regions was observed at the time of birth which was concurrent with the activity of some region-specific regulatory systems such as DNA methylation, transcription regulation, RNA splicing, and presence of different transcription factors and microRNAs. In conclusion, this study used bioinformatics to present a comprehensive molecular overview on PFC development which may explain the etiology of brain neuropsychiatric disorders originated from malfunctioning of PFC.

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Decoding human gene expression signatures in the brain

Cited by 9 publications

References 77 publications

Correspondence between Resting-State Activity and Brain Gene Expression

Correspondence between Resting-State Activity and Brain Gene Expression

Transcriptional networks identify synaptotagmin-like 3 as a regulator of cortical neuronal migration during early neurodevelopment

Identification of the Molecular Events Involved in the Development of Prefrontal Cortex Through the Analysis of RNA-Seq Data From BrainSpan

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