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Magnetic Resonance Connectome Automated Pipeline
Description: Manuscript describing MRCAP methods
Updated: Nov 29, 2011
MRCAP JIST Layout
Description: MRCAP JIST Layout (Alpha)
Updated: Jun 27, 2011
MRCAP Pipeline Overview
Description: MRCAP Pipeline Overview
Updated: Jun 27, 2011
PubMed Mentions ( 60 )+
A baseline for the multivariate comparison of resting-state networks.
Description: Allen, Elena A, et al. A baseline for the multivariate comparison of resting-state networks. ''Front Syst Neurosci''. 2011; '''5''': 2
Updated: Dec 16, 2017
Effects of non-local diffusion on structural MRI preprocessing and default network mapping: statistical comparisons with isotropic/anisotropic diffusion.
Description: Zuo, Xi-Nian, et al. Effects of non-local diffusion on structural MRI preprocessing and default network mapping: statistical comparisons with isotropic/anisotropic diffusion. ''PLoS One''. 2011; '''6''' (10):e26703
Updated: Dec 16, 2017
Exploring the psychosis functional connectome: aberrant intrinsic networks in schizophrenia and bipolar disorder.
Description: Calhoun, Vince D, et al. Exploring the psychosis functional connectome: aberrant intrinsic networks in schizophrenia and bipolar disorder. ''Front Psychiatry''. 2011; '''2''': 75
Updated: Dec 16, 2017
The connectome viewer toolkit: an open source framework to manage, analyze, and visualize connectomes.
Description: Gerhard, Stephan, et al. The connectome viewer toolkit: an open source framework to manage, analyze, and visualize connectomes. ''Front Neuroinform''. 2011; '''5''': 3
Updated: Dec 16, 2017
The BrainMap strategy for standardization, sharing, and meta-analysis of neuroimaging data.
Description: Laird, Angela R, et al. The BrainMap strategy for standardization, sharing, and meta-analysis of neuroimaging data. ''BMC Res Notes''. 2011 Sep 9; '''4''': 349
Updated: Dec 16, 2017
Automated diagnoses of attention deficit hyperactive disorder using magnetic resonance imaging.
Description: Eloyan, Ani, et al. Automated diagnoses of attention deficit hyperactive disorder using magnetic resonance imaging. ''Front Syst Neurosci''. 2012; '''6''': 61
Updated: Dec 16, 2017
Consistency of network modules in resting-state FMRI connectome data.
Description: Moussa, Malaak N, et al. Consistency of network modules in resting-state FMRI connectome data. ''PLoS One''. 2012; '''7''' (8):e44428
Updated: Dec 16, 2017
Correspondence between structure and function in the human brain at rest.
Description: Segall, Judith M, et al. Correspondence between structure and function in the human brain at rest. ''Front Neuroinform''. 2012; '''6''': 10
Updated: Dec 16, 2017
Data sharing in neuroimaging research.
Description: Poline, Jean-Baptiste, et al. Data sharing in neuroimaging research. ''Front Neuroinform''. 2012; '''6''': 9
Updated: Dec 16, 2017
Entorhinal verrucae geometry is coincident and correlates with Alzheimer's lesions: a combined neuropathology and high-resolution ex vivo MRI analysis.
Description: Augustinack, Jean C, et al. Entorhinal verrucae geometry is coincident and correlates with Alzheimer's lesions: a combined neuropathology and high-resolution ex vivo MRI analysis. ''Acta Neuropathol''. 2012 Jan; '''123''' (1):85-96
Updated: Dec 16, 2017
Mapping connectivity damage in the case of Phineas Gage.
Description: Van Horn, John Darrell, et al. Mapping connectivity damage in the case of Phineas Gage. ''PLoS One''. 2012; '''7''' (5):e37454
Updated: Dec 16, 2017
The importance of combining MRI and large-scale digital histology in neuroimaging studies of brain connectivity and disease.
Description: Annese, Jacopo. The importance of combining MRI and large-scale digital histology in neuroimaging studies of brain connectivity and disease. ''Front Neuroinform''. 2012; '''6''': 13
Updated: Dec 16, 2017
The pipeline system for Octave and Matlab (PSOM): a lightweight scripting framework and execution engine for scientific workflows.
Description: Bellec, Pierre, et al. The pipeline system for Octave and Matlab (PSOM): a lightweight scripting framework and execution engine for scientific workflows. ''Front Neuroinform''. 2012; '''6''': 7
Updated: Dec 16, 2017
The UCLA multimodal connectivity database: a web-based platform for brain connectivity matrix sharing and analysis.
Description: Brown, Jesse A, et al. The UCLA multimodal connectivity database: a web-based platform for brain connectivity matrix sharing and analysis. ''Front Neuroinform''. 2012; '''6''': 28
Updated: Dec 16, 2017
Towards the "baby connectome": mapping the structural connectivity of the newborn brain.
Description: Tymofiyeva, Olga, et al. Towards the "baby connectome": mapping the structural connectivity of the newborn brain. ''PLoS One''. 2012; '''7''' (2):e31029
Updated: Dec 16, 2017
Magnetic resonance connectome automated pipeline: an overview.
Description: Gray, William R, et al. Magnetic resonance connectome automated pipeline: an overview. ''IEEE Pulse''. 2012 Mar; '''3''' (2):42-8
Updated: Dec 16, 2017
Individual functional ROI optimization via maximization of group-wise consistency of structural and functional profiles.
Description: Li, Kaiming, et al. Individual functional ROI optimization via maximization of group-wise consistency of structural and functional profiles. ''Neuroinformatics''. 2012 Jul; '''10''' (3):225-42
Updated: Dec 16, 2017
Diffusion MRI of the neonate brain: acquisition, processing and analysis techniques.
Description: Pannek, Kerstin, et al. Diffusion MRI of the neonate brain: acquisition, processing and analysis techniques. ''Pediatr Radiol''. 2012 Oct; '''42''' (10):1169-82
Updated: Dec 16, 2017
High-throughput anatomy: Charting the brain's networks.
Description: Marx, Vivien. High-throughput anatomy: Charting the brain's networks. ''Nature''. 2012 Oct 11; '''490''' (7419):293-8
Updated: Dec 16, 2017
Altered white matter architecture in BDNF met carriers.
Description: Ziegler, Erik, et al. Altered white matter architecture in BDNF met carriers. ''PLoS One''. 2013; '''8''' (7):e69290
Updated: Dec 16, 2017
Amygdala volume predicts inter-individual differences in fearful face recognition.
Description: Zhao, Ke, et al. Amygdala volume predicts inter-individual differences in fearful face recognition. ''PLoS One''. 2013; '''8''' (8):e74096
Updated: Dec 16, 2017
An automated method for identifying artifact in independent component analysis of resting-state FMRI.
Description: Bhaganagarapu, Kaushik, et al. An automated method for identifying artifact in independent component analysis of resting-state FMRI. ''Front Hum Neurosci''. 2013; '''7''': 343
Updated: Dec 16, 2017
BOLD Granger causality reflects vascular anatomy.
Description: Webb, J Taylor, et al. BOLD Granger causality reflects vascular anatomy. ''PLoS One''. 2013; '''8''' (12):e84279
Updated: Dec 16, 2017
BrainCAT - a tool for automated and combined functional magnetic resonance imaging and diffusion tensor imaging brain connectivity analysis.
Description: Marques, Paulo, et al. BrainCAT - a tool for automated and combined functional magnetic resonance imaging and diffusion tensor imaging brain connectivity analysis. ''Front Hum Neurosci''. 2013; '''7''': 794
Updated: Dec 16, 2017
Decreased frontal gyrification correlates with altered connectivity in children with autism.
Description: Schaer, Marie, et al. Decreased frontal gyrification correlates with altered connectivity in children with autism. ''Front Hum Neurosci''. 2013; '''7''': 750
Updated: Dec 16, 2017
Integration of ultra-high field MRI and histology for connectome based research of brain disorders.
Description: Yang, Shan, et al. Integration of ultra-high field MRI and histology for connectome based research of brain disorders. ''Front Neuroanat''. 2013; '''7''': 31
Updated: Dec 16, 2017
PANDA: a pipeline toolbox for analyzing brain diffusion images.
Description: Cui, Zaixu, et al. PANDA: a pipeline toolbox for analyzing brain diffusion images. ''Front Hum Neurosci''. 2013; '''7''': 42
Updated: Dec 16, 2017
Detecting brain state changes via fiber-centered functional connectivity analysis.
Description: Li, Xiang, et al. Detecting brain state changes via fiber-centered functional connectivity analysis. ''Neuroinformatics''. 2013 Apr; '''11''' (2):193-210
Updated: Dec 16, 2017
Mapping brain circuitry with a light microscope.
Description: Osten, Pavel, et al. Mapping brain circuitry with a light microscope. ''Nat Methods''. 2013 Jun; '''10''' (6):515-23
Updated: Dec 16, 2017
Fine-granularity functional interaction signatures for characterization of brain conditions.
Description: Hu, Xintao, et al. Fine-granularity functional interaction signatures for characterization of brain conditions. ''Neuroinformatics''. 2013 Jul; '''11''' (3):301-17
Updated: Dec 16, 2017
How to produce personality neuroscience research with high statistical power and low additional cost.
Description: Mar, Raymond A, et al. How to produce personality neuroscience research with high statistical power and low additional cost. ''Cogn Affect Behav Neurosci''. 2013 Sep; '''13''' (3):674-85
Updated: Dec 16, 2017
Toward a neurometric foundation for probabilistic independent component analysis of fMRI data.
Description: Poppe, Andrew B, et al. Toward a neurometric foundation for probabilistic independent component analysis of fMRI data. ''Cogn Affect Behav Neurosci''. 2013 Sep; '''13''' (3):641-59
Updated: Dec 16, 2017
The minimal preprocessing pipelines for the Human Connectome Project.
Description: Glasser, Matthew F, et al. The minimal preprocessing pipelines for the Human Connectome Project. ''Neuroimage''. 2013 Oct 15; '''80''': 105-24
Updated: Dec 16, 2017
Neuroimaging biomarkers and cognitive function in non-CNS cancer and its treatment: current status and recommendations for future research.
Description: Saykin, Andrew J, et al. Neuroimaging biomarkers and cognitive function in non-CNS cancer and its treatment: current status and recommendations for future research. ''Brain Imaging Behav''. 2013 Dec; '''7''' (4):363-73
Updated: Dec 16, 2017
Resting state FMRI research in child psychiatric disorders.
Description: Oldehinkel, Marianne, et al. Resting state FMRI research in child psychiatric disorders. ''Eur Child Adolesc Psychiatry''. 2013 Dec; '''22''' (12):757-70
Updated: Dec 16, 2017
The Cancer Imaging Archive (TCIA): maintaining and operating a public information repository.
Description: Clark, Kenneth, et al. The Cancer Imaging Archive (TCIA): maintaining and operating a public information repository. ''J Digit Imaging''. 2013 Dec; '''26''' (6):1045-57
Updated: Dec 16, 2017
MEG and EEG data analysis with MNE-Python.
Description: Gramfort, Alexandre, et al. MEG and EEG data analysis with MNE-Python. ''Front Neurosci''. 2013 Dec 26; '''7''': 267
Updated: Dec 16, 2017
Analytic programming with FMRI data: a quick-start guide for statisticians using R.
Description: Eloyan, Ani, et al. Analytic programming with FMRI data: a quick-start guide for statisticians using R. ''PLoS One''. 2014; '''9''' (2):e89470
Updated: Dec 16, 2017
A robust classifier to distinguish noise from fMRI independent components.
Description: Sochat, Vanessa, et al. A robust classifier to distinguish noise from fMRI independent components. ''PLoS One''. 2014; '''9''' (4):e95493
Updated: Dec 16, 2017
Assessment of the structural brain network reveals altered connectivity in children with unilateral cerebral palsy due to periventricular white matter lesions.
Description: Pannek, Kerstin, et al. Assessment of the structural brain network reveals altered connectivity in children with unilateral cerebral palsy due to periventricular white matter lesions. ''Neuroimage Clin''. 2014; '''5''': 84-92
Updated: Dec 16, 2017
BROCCOLI: Software for fast fMRI analysis on many-core CPUs and GPUs.
Description: Eklund, Anders, et al. BROCCOLI: Software for fast fMRI analysis on many-core CPUs and GPUs. ''Front Neuroinform''. 2014; '''8''': 24
Updated: Dec 16, 2017
Dipy, a library for the analysis of diffusion MRI data.
Description: Garyfallidis, Eleftherios, et al. Dipy, a library for the analysis of diffusion MRI data. ''Front Neuroinform''. 2014; '''8''': 8
Updated: Dec 16, 2017
Disrupted brain functional network in internet addiction disorder: a resting-state functional magnetic resonance imaging study.
Description: Wee, Chong-Yaw, et al. Disrupted brain functional network in internet addiction disorder: a resting-state functional magnetic resonance imaging study. ''PLoS One''. 2014; '''9''' (9):e107306
Updated: Dec 16, 2017
Dynamic connectivity states estimated from resting fMRI Identify differences among Schizophrenia, bipolar disorder, and healthy control subjects.
Description: Rashid, Barnaly, et al. Dynamic connectivity states estimated from resting fMRI Identify differences among Schizophrenia, bipolar disorder, and healthy control subjects. ''Front Hum Neurosci''. 2014; '''8''': 897
Updated: Dec 16, 2017
Functional and structural network impairment in childhood frontal lobe epilepsy.
Description: Vaessen, Maarten J, et al. Functional and structural network impairment in childhood frontal lobe epilepsy. ''PLoS One''. 2014; '''9''' (3):e90068
Updated: Dec 16, 2017
Magnetic resonance imaging of healthy and diseased brain networks.
Description: He, Yong, et al. Magnetic resonance imaging of healthy and diseased brain networks. ''Front Hum Neurosci''. 2014; '''8''': 890
Updated: Dec 16, 2017
Mapping topographic structure in white matter pathways with level set trees.
Description: Kent, Brian P, et al. Mapping topographic structure in white matter pathways with level set trees. ''PLoS One''. 2014; '''9''' (4):e93344
Updated: Dec 16, 2017
Neuroinformatics challenges to the structural, connectomic, functional and electrophysiological multimodal imaging of human traumatic brain injury.
Description: Goh, S Y Matthew, et al. Neuroinformatics challenges to the structural, connectomic, functional and electrophysiological multimodal imaging of human traumatic brain injury. ''Front Neuroinform''. 2014; '''8''': 19
Updated: Dec 16, 2017
Primate comparative neuroscience using magnetic resonance imaging: promises and challenges.
Description: Mars, Rogier B, et al. Primate comparative neuroscience using magnetic resonance imaging: promises and challenges. ''Front Neurosci''. 2014; '''8''': 298
Updated: Dec 16, 2017
Systematic network lesioning reveals the core white matter scaffold of the human brain.
Description: Irimia, Andrei, et al. Systematic network lesioning reveals the core white matter scaffold of the human brain. ''Front Hum Neurosci''. 2014; '''8''': 51
Updated: Dec 16, 2017
Influence of wiring cost on the large-scale architecture of human cortical connectivity.
Description: Samu, David, et al. Influence of wiring cost on the large-scale architecture of human cortical connectivity. ''PLoS Comput Biol''. 2014 Apr; '''10''' (4):e1003557
Updated: Dec 16, 2017
Transcriptional landscape of the prenatal human brain.
Description: Miller, Jeremy A, et al. Transcriptional landscape of the prenatal human brain. ''Nature''. 2014 Apr 10; '''508''' (7495):199-206
Updated: Dec 16, 2017
Automatic denoising of functional MRI data: combining independent component analysis and hierarchical fusion of classifiers.
Description: Salimi-Khorshidi, Gholamreza, et al. Automatic denoising of functional MRI data: combining independent component analysis and hierarchical fusion of classifiers. ''Neuroimage''. 2014 Apr 15; '''90''': 449-68
Updated: Dec 16, 2017
Study protocol: The Whitehall II imaging sub-study.
Description: Filippini, Nicola, et al. Study protocol: The Whitehall II imaging sub-study. ''BMC Psychiatry''. 2014 May 30; '''14''': 159
Updated: Dec 16, 2017
Human neuroimaging as a "Big Data" science.
Description: Van Horn, John Darrell, et al. Human neuroimaging as a "Big Data" science. ''Brain Imaging Behav''. 2014 Jun; '''8''' (2):323-31
Updated: Dec 16, 2017
The perfect neuroimaging-genetics-computation storm: collision of petabytes of data, millions of hardware devices and thousands of software tools.
Description: Dinov, Ivo D, et al. The perfect neuroimaging-genetics-computation storm: collision of petabytes of data, millions of hardware devices and thousands of software tools. ''Brain Imaging Behav''. 2014 Jun; '''8''' (2):311-22
Updated: Dec 16, 2017
2014 Joint ACTRIMS-ECTRIMS Meeting (MSBoston 2014) MS Journal Online: Poster Session 1.
Description: 2014 Joint ACTRIMS-ECTRIMS Meeting (MSBoston 2014) MS Journal Online: Poster Session 1. ''Mult Scler''. 2014 Sep; '''20''' (1 Suppl):67-284
Updated: Dec 16, 2017
ACTRIMS-ECTRIMS MSBoston 2014: Poster Sessions 2.
Description: ACTRIMS-ECTRIMS MSBoston 2014: Poster Sessions 2. ''Mult Scler''. 2014 Sep; '''20''' (1 Suppl):285-496
Updated: Dec 16, 2017
Disparate connectivity for structural and functional networks is revealed when physical location of the connected nodes is considered.
Description: Pineda-Pardo, Jose Angel, et al. Disparate connectivity for structural and functional networks is revealed when physical location of the connected nodes is considered. ''Brain Topogr''. 2015 Mar; '''28''' (2):187-96
Updated: Dec 16, 2017
Data quality in diffusion tensor imaging studies of the preterm brain: a systematic review.
Description: Pieterman, Kay, et al. Data quality in diffusion tensor imaging studies of the preterm brain: a systematic review. ''Pediatr Radiol''. 2015 Aug; '''45''' (9):1372-81
Updated: Dec 16, 2017