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Central neurogenetic signatures of the visuomotor integration system

Elisenda Bueichekú, Maite Aznárez-Sanado, Ibai Diez, Federico d'Oleire Uquillas, Laura Ortiz-Terán, Abid Y. Qureshi, Maria Suñol, Silvia Basaia, Elena Ortiz-Terán, Maria A. Pastor, Jorge Sepulcre
2020 Proceedings of the National Academy of Sciences of the United States of America  
In this study, we used neuroimaging connectomic approaches to map the visuomotor integration (VMI) system in the human brain and investigated the topology approximation of the VMI network to the Allen  ...  Human Brain Atlas, a whole-brain transcriptome-wide atlas of cortical genetic expression.  ...  Human Brain Atlas, a whole-brain transcriptome-wide atlas of cortical genetic expression.  ... 
doi:10.1073/pnas.1912429117 pmid:32144139 fatcat:i7kmer7uffcgfdfi5oketza5du

Untapped Neuroimaging Tools for Neuro-Oncology: Connectomics and Spatial Transcriptomics

Jurgen Germann, Gelareh Zadeh, Alireza Mansouri, Walter Kucharczyk, Andres M. Lozano, Alexandre Boutet
2022 Cancers  
Magnetic resonance imaging (MRI) is instrumental for the diagnosis and treatment monitoring of patients with brain tumors.  ...  These normative analyses are uncommonly used in neuro-oncology research. Once the data have been normalized, voxel-wise analyses and spatial mapping can be performed.  ...  The resulting spatial maps of those analyses can then be used as input for the spatial transcriptomics analysis outlined on the right side of the figure.  ... 
doi:10.3390/cancers14030464 pmid:35158732 pmcid:PMC8833690 fatcat:ly35atvdzvf7jft2dgzighnfti

Regional expression profiles of risk genes for depression are associated with brain activation patterns in emotion and reward tasks [article]

Arkadiusz Komorowski, Ramon Vidal, Aditya Singh, Matej Murgas, Tonatiuh Pena-Centeno, Gregor Gryglewski, Siegfried Kasper, Jens Wiltfang, Rupert Lanzenberger, Roberto Goya-Maldonado
2020 bioRxiv   pre-print
Here, we estimated the spatial association between genome-wide transcriptome maps and brain activation patterns from functional magnetic resonance imaging (fMRI) with two established paradigms of great  ...  The identification of multiple subordinate genes correlated with fMRI maps and their corresponding regulators presumably will reshape the prospects for neuroimaging genetics.  ...  Acknowledgements We thank the students of the Laboratory of Systems Neuroscience and Imaging in Psychiatry  ... 
doi:10.1101/2020.06.27.175257 fatcat:itzsynemejbdjdnnth7rhfree4

From online resources to collaborative global neuroscience research: where are we heading?

Pike-See Cheah, King-Hwa Ling, Eric Tatt Wei Ho
2020 Neuroscience Research Notes  
The most visible contributions from neuroinformatics include the myriad reference atlases of brain anatomy (human and other mammals such as rodents, primates and pig), gene and protein sequences and the  ...  Neuroinformatics is an emerging sub-field of neuroscience which focuses on addressing the unique technological and computational challenges to integrate and analyze the increasingly high-volume, multi-dimensional  ...  The BigBrain is an ultrahighresolution three-dimensional (3D) reconstruction of the whole human brain, from cell-body stained histology, with 20 micrometres isotropic resolution.  ... 
doi:10.31117/neuroscirn.v3i3.51 fatcat:ffjk3qexf5evhj73a43thh7ubi

Cortical Networks of Creative Ability Trace Gene Expression Profiles of Synaptic Plasticity in the Human Brain

William Orwig, Ibai Diez, Elisenda Bueichekú, Patrizia Vannini, Roger Beaty, Jorge Sepulcre
2021 Frontiers in Human Neuroscience  
This connectomic-transcriptome approach thus identifies gene expression profiles associated with high creative ability, linking cognitive flexibility to neural plasticity in the human brain.  ...  Our findings reveal strong spatial correlations between connectivity maps and sets of genes devoted to synaptic assembly and signaling.  ...  The AHBA provides whole-brain expression distributions for six human subjects (Hawrylycz et al., 2012) .  ... 
doi:10.3389/fnhum.2021.694274 pmid:34381343 pmcid:PMC8350487 fatcat:3qsp6w7c2jbjzipiw5b3p2tf6q

Distinct genetic signatures of cortical and subcortical regions associated with human memory

Pin Kwang Tan, Egor Ananyev, Po-Jang (Brown) Hsieh
2019 eNeuro  
Here, we devised an unsupervised framework that relies on spatial correlations between human transcriptome data and functional neuroimaging maps to uncover the genetic signatures of memory in functionally-defined  ...  Despite the discovery of gene variants linked to memory performance, understanding the genetic basis of adult human memory remains a challenge.  ...  Data were provided by the Allen Institute for Brain Science and the Neurosynth repository.  ... 
doi:10.1523/eneuro.0283-19.2019 pmid:31818829 pmcid:PMC6917897 fatcat:qltfeg6mejf2pdteif4psqxr2e

The ENIGMA Toolbox: Cross-disorder integration and multiscale neural contextualization of multisite neuroimaging datasets [article]

Sara Lariviere, Casey Paquola, Bo-yong Park, Jessica Royer, Yezhou Wang, Oualid Benkarim, Reinder Vos de Wael, Sofie Louise Valk, Sophia I Thomopoulos, Matthias Kirschner, Sanjay Sisodiya, Carrie McDonald (+3 others)
2020 bioRxiv   pre-print
yielded some of the largest studies of the healthy and diseased brain.  ...  Here, we introduce the ENIGMA Toolbox, a Python/Matlab ecosystem for (i) accessing ENIGMA datasets, allowing for cross-disorder analysis, (ii) visualizing data on brain surfaces, and (iii) contextualizing  ...  P.M.T. received partial grant support from Biogen, Inc., and consulting payments from Kairos Venture Capital, Inc., for work unrelated to ENIGMA and this manuscript.  ... 
doi:10.1101/2020.12.21.423838 fatcat:attlmrhftzhtbp4csnq4pthgni

Brain transcriptome atlases: a computational perspective

Ahmed Mahfouz, Sjoerd M. H. Huisman, Boudewijn P. F. Lelieveldt, Marcel J. T. Reinders
2016 Brain Structure and Function  
The immense complexity of the mammalian brain is largely reflected in the underlying molecular signatures of its billions of cells.  ...  Brain transcriptome atlases provide valuable insights into gene expression patterns across different brain areas throughout the course of development.  ...  , and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.  ... 
doi:10.1007/s00429-016-1338-2 pmid:27909802 pmcid:PMC5406417 fatcat:zflsrogrsze53jro2ayrcdffs4

Recent Technical Advances in Accelerating the Clinical Translation of Small Animal Brain Imaging: Hybrid Imaging, Deep Learning, and Transcriptomics

Wuwei Ren, Bin Ji, Yihui Guan, Lei Cao, Ruiqing Ni
2022 Frontiers in Medicine  
Advances in structural, functional, and molecular imaging using MRI, PET, fluorescence imaging, and optoacoustic imaging have enabled the interrogation of the rodent brain across a large temporal and spatial  ...  Small animal models play a fundamental role in brain research by deepening the understanding of the physiological functions and mechanisms underlying brain disorders and are thus essential in the development  ...  The development of 7 T human MRI allows imaging of the living human brain at the mesoscopic level with a high spatial and temporal signal-to-noise ratio (SNR) (7, 8) .  ... 
doi:10.3389/fmed.2022.771982 pmid:35402436 pmcid:PMC8987112 fatcat:63egkkymnfcixj6piv4tnkl73m

Whole-Cortex Mapping of Common Genetic Influences on Depression and Social Deficits [article]

Alexander S. Hatoum, Andrew E. Reinberg, Harry R. Smolker, John K. Hewitt, Naomi P. Friedman
2018 bioRxiv   pre-print
a toolbox that maps genetic and environmental associations between brain and behavior at high resolution.  ...  However, heritability varies within brain regions, so a high-resolution genetic perspective is needed.Method In a sample of 258 same-sex twin pairs from the Colorado Longitudinal Twin Study (LTS), we developed  ...  Finally, using high-resolution analysis and MNI coordinates allows for integration with functional and transcriptomics literature more broadly. imaging data passed quality control were included.  ... 
doi:10.1101/500827 fatcat:bijafpghwvgehgj3xfbdpfzx4q

Connectivity adaptations in dopaminergic systems define the brain maturity of investors

Elena Ortiz-Teran, Ibai Diez, Jorge Sepulcre, Joaquin Lopez-Pascual, Tomas Ortiz
2021 Scientific Reports  
As experience is capable of molding both the structure and function of the human brain, we have used a novel neuroimaging connectomic-genetic approach to investigate the influence of investment work experience  ...  AbstractInvestment decisions rely on perceptions from external stimuli along with the integration of inner brain-body signals, all of which are shaped by experience.  ...  The AHBA provides high-resolution genome-wide expression values for six human subjects, quantifying more than 20,000 genes in 3702 samples spatially distributed throughout the brain 56 .  ... 
doi:10.1038/s41598-021-91227-x pmid:34083626 fatcat:yx2jn47jpvanxek4mvidcpf6eu

Autism excitation-inhibition imbalance linked to brain hyperconnectivity: An analysis based on 657 autistic subjects [article]

Javier Rasero, Antonio Jimenez-Marin, Ibai Diez, Roberto Toro, Mazahi T. Hasan, Jesus M. Cortes
2022 bioRxiv   pre-print
The large heterogeneity in autism spectrum disorder (ASD) is a major drawback for the development of therapies.  ...  The two subtypes did not differ in structural imaging metrics in any of the regions analyzed (64 cortical and 14 subcortical), nor in any of the behavioral scores (including Intelligence Quotient, ADI  ...  Acknowledgments The authors are really pleased to thank Amaia Iribar Zabala for her fantastic work at the initial stage of this  ... 
doi:10.1101/2022.07.14.500131 fatcat:dwkp26gq4jhwpfvyctfigjfhmi

Neuroscience in the era of functional genomics and systems biology

Daniel H. Geschwind, Genevieve Konopka
2009 Nature  
Methods for network analysis and systems biology offer the promise of integrating these multiple levels of data, connecting molecular pathways to nervous system function.  ...  One of the most exciting and challenging frontiers in neuroscience involves harnessing the power of large-scale genetic, genomic and phenotypic data sets, and the development of tools for data integration  ...  Coppola, who helped with several figures and provided critical comments on the manuscript; M. Oldham, for his pioneering use of WGCNA in the brain; and D.  ... 
doi:10.1038/nature08537 pmid:19829370 pmcid:PMC3645852 fatcat:em76lkwtljeennjp34u6gpl7hi

Integrated transcriptomic and neuroimaging brain model decodes biological mechanisms in aging and Alzheimer's disease

Quadri Adewale, Ahmed F Khan, Felix Carbonell, Yasser Iturria-Medina, Alzheimer's Disease Neuroimaging Initiative
2021 eLife  
However, generative brain models of aging and AD are limited in incorporating the measures of these biological factors at different spatial resolutions.  ...  Here, we propose a personalized bottom-up spatiotemporal brain model that accounts for the direct interplay between hundreds of RNA transcripts and multiple macroscopic neuroimaging modalities (PET, MRI  ...  Acknowledgements This research was undertaken by funding from the Canada First Research Excellence Fund, awarded to McGill University for the Healthy Brains for Healthy Lives Initiative, the Fonds de la  ... 
doi:10.7554/elife.62589 fatcat:xsjoim5fdjevdf4qfcdhhbxpgy

Whole-cortex mapping of common genetic influences on depression and a social deficits dimension

Alexander S. Hatoum, Andrew E. Reineberg, Harry R. Smolker, John K. Hewitt, Naomi P. Friedman
2019 Translational Psychiatry  
We developed a toolbox that maps genetic and environmental associations between brain and behavior at high resolution.  ...  We then overlapped the two maps to generate coordinates that allow for tests of downstream effects of genes influencing our clusters.  ...  Acknowledgements This research was supported by NIH grants MH063207, AG046938, and MH016880. Cold Spring Harbor Laboratory hosted the preprint for this manuscript on Bioarchive.  ... 
doi:10.1038/s41398-019-0611-6 pmid:31727881 pmcid:PMC6856353 fatcat:6e5emmu2nve3foxhotl5x5ps6a
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