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WholeBrain specifications


Unique identifier OMICS_24763
Name WholeBrain
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C, C++, Fortran, R
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes




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  • person_outline Konstantinos Meletis

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Publication for WholeBrain

WholeBrain citations


Current Clinical Applications of Diffusion Tensor Imaging in Neurological Disorders

PMCID: 5897194
PMID: 29504292
DOI: 10.3988/jcn.2018.14.2.129

[…] in patients with MDD.With regard to illness duration, a study that applied linear regression analysis and the TBSS toolkit found that a longer illness duration was inversely correlated with the mean wholebrain FA. There are also several lines of evidence that microstructural abnormalities can predict the treatment outcomes when administering antidepressants in MDD. The FA values bilaterally in th […]


Neural predictors of cognitive improvement by multi strategic memory training based on metamemory in older adults with subjective memory complaints

Sci Rep
PMCID: 5773558
PMID: 29348440
DOI: 10.1038/s41598-018-19390-2

[…] is related to the MMT outcomes,.However, insufficient and inconsistent research on the neural predictors for training outcomes hinders the formulation of any definitive hypothesis. Thus, we performed wholebrain voxelwise analyses to assess cerebral gray and white matter predictors of MMT. In the current study, stepwise multiple regression was used to investigate demographical and neuropsychologica […]


Evidencing a place for the hippocampus within the core scene processing network

Hum Brain Mapp
PMCID: 5082524
PMID: 27257784
DOI: 10.1002/hbm.23275

[…] discussed previously [Nieto‐Castañón and Fedorenko, ], such an approach affords a greater understanding of inter‐individual consistency that is relatively independent of sample size. For example, the wholebrain random‐effects group analysis alone tells us nothing specific about inter‐subject consistency, just that a point of overlap exists. A probabilistic atlas based on individually defined activ […]


Opposing effects of negative emotion on amygdalar and hippocampal memory for items and associations

PMCID: 4884322
PMID: 26969864
DOI: 10.1093/scan/nsw028

[…] th other regions. For example, previous work has suggested that the amygdala interacts with visual areas to promote attention and encoding of emotionally relevant stimuli (). We therefore performed a wholebrain PPI analysis with the left amygdala as a seed region, taken from the encoding subsequent item memory effect, and looked for areas showing greater connectivity for negative over neutral imag […]


Predicting clinical outcome from reward circuitry function and white matter structure in behaviorally and emotionally dysregulated youth

Mol Psychiatry
PMCID: 4993633
PMID: 26903272
DOI: 10.1038/mp.2016.5

[…] Significant wholebrain mean BOLD activity to the Win>Control contrast was extracted (voxelwise p≤.001, clusterwise 3DClusterSim p≤.05 corrected; , minimum k=38) as recommended (–). Full weight half max (FWHM) x, […]

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WholeBrain institution(s)
Department of Neuroscience, Karolinska Institutet, Stockholm, Sweden; Department of Neuroscience, Scripps Research Institute, Jupiter, FL, USA; Department of Neuroscience, Karolinska Institutet, Stockholm, Sweden; Department of Bioengineering, Stanford University, Stanford, CA, USA; Department of Molecular Medicine, Scripps Research Institute, Jupiter, FL, USA
WholeBrain funding source(s)
Supported by the Swedish Research Council (VR 2012-02049), from the Karolinska Institutet (KID-funding supporting), from the Strategic Neuroscience Area at Karolinska Institutet (StratNeuro) for rabies virus production and from the Swedish Brain Foundation (Hjärnfonden) the National Institute of Mental Health grant (MH109795) and a National Institute on Drug Abuse grant (DA0036376).

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