Questions tagged [neuroimaging]

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

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26 views

True activity maps of the brain

In a video on the effects of music on the brain Oliver Sack's brain is shown when listening to Bach as opposed to listening to Beethoven: Jokes are made from the off: "Sorry, Beethoven, there's not ...
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1answer
53 views

Which characteristics of neural activity patterns underlie conscious experience?

Which specific characteristics of neural activity patterns are unique for the cortex and neocortex as the presumed "seat of consciousness" and can only be observed there? Activity patterns having ...
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17 views

How well is biofeedback understood?

From an answer to the question Research suggesting conscious control over brain region activation? I have learned: »[S]ubjects become better at up-regulating or down-regulating activation in ...
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19 views

Functional neuronal units that occupy the same brain region

[Thanks to Bryan Krause's advice, I edited the question.] Definition: Let two functional units be two sets of neurons, A and B, such that the probability of being connected (synaptically or by ...
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1answer
51 views

What is the brain doing when someone tries to solve a physics or math problem that they can’t make any progress on?

Is their brain actually working or is it day dreaming and not functioning if they’re staring at a physics problem and not capable of making any progress on it? When a student who can’t come up with ...
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2answers
101 views

Is what psychologists define as subconsciousness proven in neuroscience and can the psychological subconsciousness be visualized by neuroscientists?

We read phrases like The subconsciousness makes up 90% of our brain. The subconsciousness makes up 95% of our brain. The subconsciousness can be influenced by hypnosis. I have yet to see a study in ...
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7 views

Working with neuroimages and visualize them as JPG, PNG, GIF and so on

I am very new in this area, i am trying to visualize a good dataset of neuroimages to work with. I am stuck to visualize the images and save OpenNeuro files, it is totally saved in JSON format and ...
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1answer
30 views

Temporally truncate BOLD data

I'm analyzing some resting-state data and some of the scans are 10 min while others are 7 min. I need to cut the last 3 min off of those with 10 min scans so everyone has 7 min of resting-state data. ...
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40 views

Find volume of lesion mask

I have drawn a lesion mask using FSLeyes on a T1-weighted image for MS patients. Is there tool to get the lesion volume from the mask?
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99 views

Supplementary Motor Area or Juxtapositional Lobule Cortex

Harvard-Oxford Cortical Structural Atlas now calls the 'Supplementary Motor Area' the 'Juxtapositional Lobule Cortex (formerly Supplementary Motor Cortex)'. I've looked for papers that explain the ...
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59 views

Publicly accessible database for the Autistic brain under MRI and/or fMRI

American neuroscientist James H. Fallon released many of the images of MRIs from diagnosed psychopaths and was able to identify a pattern when compared to the average individual. Is there a database ...
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45 views

Noise ceiling estimate is lower than model prediction in RSA?

I am using representational similarity analyses (RSA) to compare models to some fMRI data. As part of this analysis I have computed noise ceilings for each of my regions of interest (ROIs). What's ...
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41 views

Does the duration of the epoch of interest in fMRI need to be a multiple of TR?

I am designing an fMRI experiment whereby, for each trial, subjects need to listen to an auditory stimulus (of arbitrary duration), and subsequently give a rating for each stimulus. I intend to ...
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5 views

fiber connection in DTI to distance matrix

I have a question regarding the DTI fiber connection matrix. In fMRI, we can use 1-|correlation coeff| to build a connectivity matrix based on distance. How can I do so in DTI data?
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25 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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39 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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1answer
27 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. ...
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1answer
58 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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30 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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926 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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1answer
989 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
125 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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23 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 ...
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1answer
38 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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408 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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28 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
121 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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17 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
260 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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56 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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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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102 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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49 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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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
337 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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46 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 ...
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1answer
332 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
92 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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54 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 ...
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1answer
289 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?
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128 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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29 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. ...
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1answer
64 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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61 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 ...
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1answer
445 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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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 ...
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2answers
2k 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, ...
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1answer
86 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. ...