Questions tagged [neuroimaging]

For questions about techniques to directly or indirectly image the structure, function, or pharmacology of the brain.

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24 views

Active Sources Extraction

I am using the LORETA-KEY software for source localization, which gives as an output the current density of each voxel. No voxel has zero current density, so which method should be used to decide the ...
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35 views

Relaxing your concepts in meditation

I am using the app Waking up from Sam Harris. A lot of his guided meditations tell you to perceive the world as the raw data of experience, instead of perceiving objects and concepts. To illustrate ...
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11 views

task-fMRI to determine TMS site (online stimulation with that same task)?

I am planning an experiment whereby rTMS would be administered to subjects while they perform a language task, with the hopes of improving performance on this task as compared to sham stimulation. ...
3
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1answer
43 views

Is sign language handled differently by the brain than spoken laguage?

The human's ability to process language in the abstract is somewhat linked to our ability to both produce and understand sounds (see Broca's area), with that in mind, is Sign Language handled ...
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27 views

What is the term for mimicking other behaviors? [closed]

Say you see an actor playing someone insane, for the next few hours you feel kind of crazy too, especially if you are tired. You may feel annoyed and overwhelmed and mad for no reason, and kind of ...
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2answers
427 views

How do we know human brain development stops around age 25?

I've heard this stated as a fact more times than I can keep track of, but I haven't been able to find papers that actually demonstrate this. This seems to be the most cited paper on the topic, but it ...
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15 views

What methods exist for converting channel-wise directed (effective) connectiviy estimates to ROI-wise connectivity estimates?

I am reading up on directed connectivity estimates (e.g. Granger causality, DTF, dDTF) in an attempt to find a method that allows me to appropriately convert channel-wise connectivity estimates into ...
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457 views

Are scintillating scotomas really caused by cortical spreading depression? If so, how is this known to be true?

I have just read about a visual effect called a scintillating scotoma. Many variations occur, but scintillating scotoma usually begins as a spot of flickering light near or in the center of the ...
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1answer
36 views

What is the difference between an Atlas and a Parcellation?

I come from a computer science background and am just starting out in the area of analyzing brain imaging data (fMRI predominantly) and while going through some of the literature, I am kind of ...
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21 views

Can a CT scan have advserse cognitive effects on the brain? [closed]

If the normal Xrays scans, despite the low amount of radiation (equivalent to a few hours of background radiation, can be sufficient to cause a burning sensation, then I wonder if the much higher dose ...
3
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1answer
35 views

What does “they tend within and between classes” mean in 'The Irreducible Mind'?

I am a philosophy student but I'm also interested in philosophy of mind, a field that overlaps issues in psychology and neuroscience these days. This passage is taken from a similar multidisciplinary ...
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1answer
211 views

Frissons on demand

Have you ever listened to music and it gives you "chills?" This response is called a "frisson," a french word meaning "to shiver." When I want to access certain emotional and inspirationally charged ...
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0answers
26 views

Timing accuracy in presentation of videos with different frame rates (with COGENT)

For our fMRI study we want to present videos of 3 seconds duration. The videos have different frame rates: 48 videos were recorded with 50 fps 16 videos were recorded with 25fps 64 videos were ...
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1answer
61 views

In fMRI analyses, what is the t-test actually comparing?

In a 1st-level fMRI analysis, it is unclear to me what the t-test performed for each voxel is actually comparing. I've seen this being described in one of two different ways: The t-test estimates how ...
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16 views

Has there been any substantive neuroimaging done to study Gendler's belief/alief distinction?

Tamar Gendler proposed a distinction between the concept of "belief" and "alief", "belief" being the more commonly held, intuitive conception of a certain type of propositional attitude and "alief" ...
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1answer
178 views

Jung's Anima and Neurological Basis in Split-Brain Patients; Left-Persona and Right-Anima

So, having skimmed some studies on split-brain patients, it makes me wonder about the whole "left-brain/right-brain" dichotomy that made its rounds in public perception some time ago. I'm not sure ...
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0answers
55 views

Is synchronization between the MRI scanner and the stimulus presentation necessary for every trial?

I'm planning an event-related fMRI-experiment to investigate the difference in processing natural and computer-generated facial emotion expressions. I've seen a lot of studies that synchronize the ...
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0answers
33 views

Compute single patient Z-Scores from atlas anatomical zone

I have one brain image from a single patient. I have a set of normal pateints. Both, single patient and normal patients are normalised to an SPM template and the NMI space. I also have a brain atlas (...
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87 views

ROI analysis of a Z-Score map [closed]

I have a brain z-score image wich is the result of some test. The image is in the SPM space. How can I perfrom a ROI analisis of different zones? And obtain some statistics for each place.
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23 views

(Flavours of) Psychophysiological Interactions

The paper by Fischmeister et al. 2016 (Cortex) analysed fMRI task-related connectivity patterns, for two tasks that relied vs did not rely on recursive reasoning. Namely, they found "increased ...
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0answers
35 views

Task-based vs task-positive networks

Do the terms "task-positive network" and "task-based network" refer to the same thing, such as the Fronto-Parietal Control Network (FPCN), as distinct from the task-negative networks such as the ...
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0answers
22 views

Does MEG measure the sum of neural activity or the maximum?

According to Wikipedia, neurons give a response that generates a readable MEG signal when they are firing in a relatively synchronized manner and their current carrying dendrites/axons are all aligned....
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1answer
248 views

What does 'Mean Diffusivity' tell me about the connectivity of cortical areas?

I am reading an article about changes in thalamic volume and connections in relation to age and I understand that thalamic volume decreases with age. The authors find that mean diffusivity (MD) in ...
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0answers
43 views

How to cope with the problem of noise in fMRI?

The sounds and noises that a typical MRI scanner produces are problematic for several reasons: they give - annoying as they are - a strong feel of uncomfortableness to any subject or patient they are ...
4
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1answer
258 views

During body-scan ('sweeping') meditation, what does brain-imaging (e.g. fMRI) look like?

I do not know how extensive body scans have been studied with brain-imaging techniques, e.g. fMRI. Body scan is a meditation technique developed by Jon Kabat-Zinn. It was derived from a meditation ...
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2answers
84 views

Can we identify specific emotions on the basis of fMRI scans?

I am looking for fMRI studies in which the emotional response of a person listening to music is visible in the fMRI scans, paralleled by a retrospective think aloud report of the person describing his/...
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0answers
53 views

Single person with largest number of fMRI scans [closed]

Is there a known single test person of whom the largest number of fMRI scans (while performing different tasks) have been recorded? Are these publicly available? I assume some overarching patterns ...
4
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1answer
213 views

How can I visualize DTI tractography streamlines generated from FSL's probtrackX in 3D?

I currently have track files of diffusion tensor imaging (DTI) data generated from FSL's probtrackX tractography tool. What is the best software to visualize the streamlines from FSL in 3D?
7
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1answer
123 views

How to stain for orexin neurons in mice?

I am interested in studying possible depletion of orexin levels in the brains of some mice, and am wondering if anyone knows of a staining substance/technique for use on slices of fixed mouse brains ...
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0answers
23 views

How does processing of T1 images affect tractography after registering the DWI to T1?

At the moment I believe that registering (aligning) Diffusion Weighted Images (DWI) to T1 images only allows for the DWI to have a parcellation basis, and otherwise it does not give much information. ...
2
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1answer
58 views

Why the brain region with less activity is not more responsible for some action?

From my naive understanding, it seems that when people try to find correlations between a human action and a certain pattern of activity in the brain, they measure the brain activity with some device ...
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0answers
52 views

How to convert fmri brain volumes to brain graph [closed]

I am working with fMRI data of Alzheimer's Disease (AD) patients. I want to convert brain volumes to brain graph and then using different graph metrics, I want to classify the brain volumes in AD and ...
4
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1answer
392 views

where can i find preprocessed fmri data set for alzheimer's disease

I want to work on identification of Alzheimer's patients based on given fMRI data.Basically, I want to implement the following paper https://www.ncbi.nlm.nih.gov/pubmed/25907414. Where can I get ...
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0answers
59 views

NiftyReg reg_resample results in strange artifacts when registering MNI-ICBM-152 atlas

I'm using NiftyReg for image registration, and I have several artifacts when applying the warp from a non-linear registering of de facto standard MNI-ICBM-152 atlas. Here are a few slices showing the ...
5
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2answers
1k views

Difference between reverse inference and decoding (e.g. MVPA) in fMRI

Reverse inference, i.e. the use of brain activation (fMRI) data to infer the engagement of a certain mental function, is heavily criticised (e.g., Poldrack 2011, Neuron). At the same time, decoding, ...
5
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1answer
82 views

Is there a complete connectome of a minicolumn of the neocortex?

I know that there are projects that try to map brain connectivity. My question is whether there is a dataset available with the complete connectivity of just a single minicolumn of the neocortex. ...
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36 views

Library (or manual creation) of ERP components

I'm looking to test some computational models using ERP components as inputs (eg. p300, n170) I'm wondering if there is an existing library anywhere that would have a bank of wave/component examples ...
3
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1answer
63 views

What are the main differences between the FreeSurfer volumetric approach and the statistical parametric mapping from SPM?

In modern research of brain volume and function there are two main players. FreeSurfer which is free of cost and open source and the older, but more frequently used, statistical parametric mapping ...
5
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0answers
120 views

Is there a tangible benefit of synchronising the sample clock to the laser pulses in a resonant scanning two-photon microscope?

NI data acquisition cards offer a possibility of synchronising data acquisition with the pulses of a 80 MHz Ti:Sapphire laser. This supposedly helps improve the signal to noise ratio, since the true ...
2
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0answers
111 views

EEG electrode cluster selection

Is there a good review paper on electrode selection in EEG analysis to avoid the problem of double dipping (Kilner, 2013)? This is a well documented issue in neuroimaging (Kriegeskorte et al, 2009; ...
3
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1answer
55 views

Voltage sensitive dyes technique: What is the underlying measure?

I just discovered voltage sensitive dyes technique: I have seen that figures are labelled with dF/F0, what does it stands for?
3
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1answer
924 views

LAURA/LORETA source localization in Matlab

Is there a Matlab toolbox for doing source localization using LAURA or sLORETA within Matlab (not requiring additional software like LORETA-KEY, etc.)?
2
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0answers
233 views

Are there any equivalence between the Desikan-Killiany atlas to brodmann areas?

FreeSurfer makes inferences about volume, through the calculation of the surface of the brain. The parametric method (used in SPM) is a voxel-based statistics. FreeSurfer analysis does not map the ...
6
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1answer
190 views

Open access 7T resting-state fMRI dataset

I'm looking for an open access dataset of 7-tesla resting state fMRI images of human subjects. I've been able to find one so far (http://www.nature.com/articles/sdata201454). However, I need images ...
2
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2answers
898 views

How to install MARSBAR toolbox in SPM12?

I am trying to install MARSBAR toolbox into SPM12, but I am running into different problems. Initially they were all related to directory ownership and permissions (using Ubuntu 14.04), which I ...
2
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1answer
127 views

Finding the anterior comissure to set origin in a SPECT image using SPM/ISAS

I am learning how to use SPM and ISAS to analyze ictal and interictal SPECT. However I am stuck at a point of their tutorial. In the item 1.2 one has to set the origin for the SPECT image. That is, ...
3
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1answer
264 views

What is the best way to turn EEG scans in to 3D images?

I'm looking for the best way to turn standard EEG scans into 3D images of activity in the brain over the time of scanning, for example like the Glass Brain images or even connectome-style images. I ...
2
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1answer
36 views

Where can I find good references about the neuronal connections in various areas in the cortex?

As an example, I would like to know which Brodmann areas innervate the layer IV of area 10 in the brain. To which degree are these connections known? What are good books or other kinds of resources ...
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1answer
183 views

How to import images used to analysis in SPM to FreeSurfer

FreeSurfer uses the recon-all command to semi-automatically generate its statistics. This tool implies a certain directory structure in which the files with the images for the samples should be ...
3
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1answer
263 views

Batch converting .img files to .mgz in FreeSurfer

I have a series of .img files from a previous analysis in SPM that Freesurfer (FS) cannot directly handle. FS comes with a conversion tool, the mri_convert command, but I am not able to make it run ...