Functional studies of the human brain using high-speed magnetic resonance imaging

Functional Connectivity Methods and Their Applications in fMRI Data

The availability of powerful non-invasive neuroimaging techniques has given rise to various studies that aim to map the human brain. These studies focus on not only finding brain activation signatures but also on understanding the overall organization of functional communication in the brain network. Based on the principle that distinct brain regions are functionally connected and continuously share information with each other, various approaches to finding these functional networks have been proposed in the literature. In this paper, we present an overview of the most common methods to estimate and characterize functional connectivity in fMRI data. We illustrate these methodologies with resting-state functional MRI data from the Human Connectome Project, providing details of their implementation and insights on the interpretations of the results. We aim to guide researchers that are new to the field of neuroimaging by providing the necessary tools to estimate and characterize brain circuitry.

Routes of the thalamus through the history of neuroanatomy

The most distant roots of neuroanatomy trace back to antiquity, with the first human dissections, but no document which would identify the thalamus as a brain structure has reached us. Claudius Galenus (Galen) gave to the thalamus the name 'thalamus nervorum opticorum', but later on, other names were used (e.g., anchae, or buttocks-like). In 1543, Andreas Vesalius provided the first quality illustrations of the thalamus. During the 19th century, tissue staining techniques and ablative studies contributed to the breakdown of the thalamus into subregions and nuclei. The next step was taken using radiomarkers to identify connections in the absence of lesions. Anterograde and retrograde tracing methods arose in the late 1960s, supporting extension, revision, or confirmation of previously established knowledge. The use of the first viral tracers introduced a new methodological breakthrough in the mid-1970s. Another important step was supported by advances in neuroimaging of the thalamus in the 21th century. The current review follows the history of the thalamus through these technical revolutions from Antiquity to the present day.

Parcellating Cerebral Cortex: How Invasive Animal Studies Inform Noninvasive Mapmaking in Humans

The cerebral cortex in mammals contains a mosaic of cortical areas that differ in function, architecture, connectivity, and/or topographic organization. A combination of local connectivity (within-area microcircuitry) and long-distance (between-area) connectivity enables each area to perform a unique set of computations. Some areas also have characteristic within-area mesoscale organization, reflecting specialized representations of distinct types of information. Cortical areas interact with one another to form functional networks that mediate behavior, and each area may be a part of multiple, partially overlapping networks. Given their importance to the understanding of brain organization, mapping cortical areas across species is a major objective of systems neuroscience and has been a century-long challenge. Here, we review recent progress in multi-modal mapping of mouse and nonhuman primate cortex, mainly using invasive experimental methods. These studies also provide a neuroanatomical foundation for mapping human cerebral cortex using noninvasive neuroimaging, including a new map of human cortical areas that we generated using a semiautomated analysis of high-quality, multimodal neuroimaging data. We contrast our semiautomated approach to human multimodal cortical mapping with various extant fully automated human brain parcellations that are based on only a single imaging modality and offer suggestions on how to best advance the noninvasive brain parcellation field. We discuss the limitations as well as the strengths of current noninvasive methods of mapping brain function, architecture, connectivity, and topography and of current approaches to mapping the brain's functional networks.

Analysis of fMRI data using noise-diffusion network models: a new covariance-coding perspective

Since the middle of the 1990s, studies of resting-state fMRI/BOLD data have explored the correlation patterns of activity across the whole brain, which is referred to as functional connectivity (FC). Among the many methods that have been developed to interpret FC, a recently proposed model-based approach describes the propagation of fluctuating BOLD activity within the recurrently connected brain network by inferring the effective connectivity (EC). In this model, EC quantifies the strengths of directional interactions between brain regions, viewed from the proxy of BOLD activity. In addition, the tuning procedure for the model provides estimates for the local variability (input variances) to explain how the observed FC is generated. Generalizing, the network dynamics can be studied in the context of an input-output mapping-determined by EC-for the second-order statistics of fluctuating nodal activities. The present paper focuses on the following detection paradigm: observing output covariances, how discriminative is the (estimated) network model with respect to various input covariance patterns? An application with the model fitted to experimental fMRI data-movie viewing versus resting state-illustrates that changes in local variability and changes in brain coordination go hand in hand.

Brain development during the preschool years

The preschool years represent a time of expansive mental growth, with the initial expression of many psychological abilities that will continue to be refined into young adulthood. Likewise, brain development during this age is characterized by its "blossoming" nature, showing some of its most dynamic and elaborative anatomical and physiological changes. In this article, we review human brain development during the preschool years, sampling scientific evidence from a variety of sources. First, we cover neurobiological foundations of early postnatal development, explaining some of the primary mechanisms seen at a larger scale within neuroimaging studies. Next, we review evidence from both structural and functional imaging studies, which now accounts for a large portion of our current understanding of typical brain development. Within anatomical imaging, we focus on studies of developing brain morphology and tissue properties, including diffusivity of white matter fiber tracts. We also present new data on changes during the preschool years in cortical area, thickness, and volume. Physiological brain development is then reviewed, touching on influential results from several different functional imaging and recording modalities in the preschool and early school-age years, including positron emission tomography (PET), electroencephalography (EEG) and event-related potentials (ERP), functional magnetic resonance imaging (fMRI), magnetoencephalography (MEG), and near-infrared spectroscopy (NIRS). Here, more space is devoted to explaining some of the key methodological factors that are required for interpretation. We end with a section on multimodal and multidimensional imaging approaches, which we believe will be critical for increasing our understanding of brain development and its relationship to cognitive and behavioral growth in the preschool years and beyond.

Magnetic resonance imaging of neural circuits

A major goal of modern MRI research is to be able to image neural circuits in the central nervous system. Critical to this mission is the ability to describe a number of important parameters associated with neural circuits. These parameters include neural architecture, functional activation of neural circuits, anatomical and functional connectivity of neural circuits, and factors that might alter neural circuits, such as trafficking of immune cells and brain precursor cells in the brain. Remarkably, a variety of work in human and animal brains has demonstrated that all these features of neural circuits can be visualized with MRI. In this Article we provide a brief summary of the new directions in neural imaging research, which should prove useful in future analyses of normal and pathological human brains and in studies of animal models of neurological and psychiatric disorders. At present, few MRI data characterizing the neural circuits in the heart are available, but in this Article we discuss the applicable present developments and the prospects for the future.

Technical developments in radiology in Australasia dating from 1977

This article outlines the enormous technological advances that have taken place in the practice of radiology in Australasia in the 30 years since approximately 1977. These developments have led to significant improvements in image quality across all modalities, including even general radiography, which had as its genesis Roentgen's ground-breaking discovery of X-rays in 1895. However, nowhere has the development been more dramatic than in magnetic resonance imaging (MRI). This may be brought into stark reality by noting that the first MRI image of a human finger was produced in 1976 followed one year later by that of a human chest and the first MRI units were not installed in Australia and New Zealand until 1986 and 1991, respectively. The quality of these early images would be judged as laughable by today's standards where the impressive isotropic imaging that can be achieved at sub-millimetre level by both MRI and CT could not have been dreamed of 30 years ago. The review also highlights some challenges for the future of the medical physics profession.

Correlation between dynamic susceptibility contrast perfusion MRI and methionine metabolism in brain gliomas: Preliminary results

PURPOSE

To evaluate in brain gliomas the relationship between tumor vascularity measured by MR-based maximum regional cerebral blood volume (rCBV) and tumor amino-acid metabolism based on maximum carbon-11 methionine (MET) uptake on positron emission tomography (PET).

MATERIALS AND METHODS

Eighteen patients with histologically proven primary brain gliomas were included in the study. In addition to conventional MR sequences, dynamic MR images, including a first-pass gadopentetate dimeglumine T2*-weighted echo-planar perfusion sequence and a PET study using MET, were acquired. Eleven patients had low-grade gliomas, and seven had high-grade gliomas. rCBV ratios and MET uptake ratios normalized to the contralateral white matter (WM) corresponding values were measured in each tumor. Both maximum rCBV ratios and maximum MET uptake ratios were correlated to histopathology. The maximum rCBV ratios were correlated to the maximum MET uptake ratios.

RESULTS

Both the maximum rCBV ratios and maximum MET uptake ratios of high-grade gliomas were significantly higher than those of low-grade gliomas (P<0.05). There was a significant positive correlation between maximum rCBV ratios and maximum MET uptake ratios (Spearman: r=0.89, P<0.00001).

CONCLUSION

The maximum rCBV ratio and maximum MET uptake ratio are significantly correlated in gliomas, reflecting a close link between amino acid uptake and vascularity in these tumors.

Magnetic resonance imaging of changes elicited by status epilepticus in the rat brain: diffusion-weighted and T2-weighted images, regional blood volume maps, and direct correlation with tissue and cell damage

The rat brain was investigated with structural and functional magnetic resonance imaging (MRI) 12 h after the arrest of pilocarpine-induced status epilepticus lasting 4 h. Histopathological data, obtained immediately after MRI analysis, were correlated with the images through careful evaluation of tissue shrinkage. Diffusion-weighted and T2-weighted imaging showed changes throughout the cerebral cortex, hippocampus, amygdala, and medial thalamus. However, only T2-weighted imaging, based on rapid acquisition relaxation-enhanced sequences, revealed in the cortex inhomogeneous hyperintensity that was highest in a band corresponding to layer V. Regional cerebral blood volume (rCBV) maps were generated using T2*-weighted gradient-echo images and an ultrasmall superparamagnetic iron oxide contrast agent. In the cortex, rCBV peaked in superficial and deep bands exhibiting a distribution complementary to the highest T2-weighted intensity. Selective rCBV increase was also documented in the hippocampus and subcortical structures. In tissue sections, alterations indicative of marked edema were found with Nissl staining in areas corresponding to the highest T2-weighted intensity. Degenerating neurons, revealed by FluoroJadeB histochemistry, were instead concentrated in tissue exhibiting hyperperfusion in rCBV maps, such as hippocampal subfields and dentate gyrus, cortical layers II/III and VI, and medial thalamus. The data indicate that:(i) T2-weighted imaging provides a sensitive tool to investigate edematous brain alterations that follow sustained seizures; (ii) rCBV maps reveal regional hyperperfusion; (iii) rCBV peaks in tissue exhibiting marked neurodegeneration, which may not be selectively revealed by structural MRI. The findings provide an interpretation of the brain response to sustained seizures revealed in vivo by different strategies of MRI analysis.

Spatial integration of vascular changes with neural activity in mouse cortex

The authors evaluated representations of discretely activated, neighboring brain regions using real-time optical intrinsic signals by transcranial imaging with 540-nm and 610-nm broadband illumination of the mouse barrel cortex. Iron filings were glued to two neighboring whiskers (C2 + D2) that were stimulated magnetically, singly and together. Real-time images were collected, averaged, and analyzed statistically. Postmortem filling of arteries with fluorescent beads was shown in relation to histochemical staining of barrels to accurately relate surface changes to functional cortical columns. Significant optical intrinsic signal changes are related to overlapping distributions of arterioles that feed the two separate areas. Activation of adjacent and interacting cortical columns leads not only to increased magnitude of vascular responses in those columns, but also to wider spatial extent of absorption changes occurring principally in areas of cortex fed by vessels upstream of the active cortex. The localization of changing hemoglobin absorption around upstream blood vessels and their vascular domains suggests that propagated vasodilation of upstream parent vessels is greater when vasodilatory signals from separate areas of active cortex converge on common arterioles that feed them.

Signal-to-noise analysis of cerebral blood volume maps from dynamic NMR imaging studies

The use of cerebral blood volume (CBV) maps generated from dynamic MRI studies tracking the bolus passage of paramagnetic contrast agents strongly depends on the signal-to-noise ratio (SNR) of the maps. The authors present a semianalytic model for the noise in CBV maps and introduce analytic and Monte Carlo techniques for determining the effect of experimental parameters and processing strategies upon CBV-SNR. CBV-SNR increases as more points are used to estimate the baseline signal level. For typical injections, maps made with 10 baseline points have 34% more noise than those made with 50 baseline points. For a given peak percentage signal drop, an optimum TE can be chosen that, in general, is less than the baseline T2. However, because CBV-SNR is relatively insensitive to TE around this optimum value, choosing TE approximately equal to T2 does not sacrifice much SNR for typical doses of contrast agent. The TR that maximizes spin-echo CBV-SNR satisfies TR/T1 approximately equal to 1.26, whereas as short a TR as possible should be used to maximize gradient-echo CBV-SNR. In general, CBV-SNR is maximized for a given dose of contrast agent by selecting as short an input bolus duration as possible. For image SNR exceeding 20-30, the gamma-fitting procedure adds little extra noise compared with simple numeric integration. However, for noisier input images, can be the case for high resolution echo-planar images, the covarying parameters of the gamma-variate fit broaden the distribution of the CBV estimate and thereby decrease CBV-SNR. The authors compared the analytic noise predicted by their model with that of actual patient data and found that the analytic model accounts for roughly 70% of the measured variability of CBV within white matter regions of interest.

In vivo visualization of hippocampal cells and dynamics of Ca2+ concentration during anoxia: feasibility of a fiber-optic plate microscope system for in vivo experiments

The feasibility of a fiber-optic plate (FOP) microscope system employing a bundle of optical fibers and videomicroscopy for in vivo experiments was investigated. The FOP used here consisted of optical fibers 3 microns in diameter. By inserting the FOP into an animal, optical signals from the deep-lying tissue invisible from the surface could be obtained as two-dimensional images. Using this system, hippocampal cells stained with a fluorescent dye in an anesthetized rat were visualized. Elevation of intracellular free calcium concentration ([Ca2+]i) in the hippocampus of the rat during anoxic exposure was also detected with a fluorescent indicator dye. These results showed that the FOP microscope system was sufficiently applicable to in vivo experiments for studying tissue structure and physiological activity even in the deep regions with fluorometric techniques.

A single-step method for estimation of local cerebral blood volume from susceptibility contrast MRI images

A new single-step method is described for estimation of local cerebral blood volume (CBV) from multiple rapidly acquired T2- or T2*-weighted MRI images after bolus administration of a susceptibility contrast agent. This method improves on existing methods in three ways. First, the method includes the baseline scan intensity value as a fitted parameter. Second, the model is fitted directly to the original scan intensity values instead of to transformed concentration curves, avoiding the propagation of errors that occurs in the transformation. Third, the equations are reparameterized with CBV fitted directly as a model parameter. Parameter estimation methods are compared by Monte Carlo simulation. The direct method described here yields more precise parameter estimates, with smaller mean absolute deviations from the true parameter values, than the existing method when compared using simulated data. Implementation is discussed and numerical evaluation of the Digamma or Psi function is described.

Dynamic magnetic resonance imaging of human brain activity during primary sensory stimulation

Neuronal activity causes local changes in cerebral blood flow, blood volume, and blood oxygenation. Magnetic resonance imaging (MRI) techniques sensitive to changes in cerebral blood flow and blood oxygenation were developed by high-speed echo planar imaging. These techniques were used to obtain completely noninvasive tomographic maps of human brain activity, by using visual and motor stimulus paradigms. Changes in blood oxygenation were detected by using a gradient echo (GE) imaging sequence sensitive to the paramagnetic state of deoxygenated hemoglobin. Blood flow changes were evaluated by a spin-echo inversion recovery (IR), tissue relaxation parameter T1-sensitive pulse sequence. A series of images were acquired continuously with the same imaging pulse sequence (either GE or IR) during task activation. Cine display of subtraction images (activated minus baseline) directly demonstrates activity-induced changes in brain MR signal observed at a temporal resolution of seconds. During 8-Hz patterned-flash photic stimulation, a significant increase in signal intensity (paired t test; P less than 0.001) of 1.8% +/- 0.8% (GE) and 1.8% +/- 0.9% (IR) was observed in the primary visual cortex (V1) of seven normal volunteers. The mean rise-time constant of the signal change was 4.4 +/- 2.2 s for the GE images and 8.9 +/- 2.8 s for the IR images. The stimulation frequency dependence of visual activation agrees with previous positron emission tomography observations, with the largest MR signal response occurring at 8 Hz. Similar signal changes were observed within the human primary motor cortex (M1) during a hand squeezing task and in animal models of increased blood flow by hypercapnia. By using intrinsic blood-tissue contrast, functional MRI opens a spatial-temporal window onto individual brain physiology.

Susceptibility contrast imaging of cerebral blood volume: human experience

Magnetic resonance (MR) can offer a unique window on the structure/function relationships in the brain, by utilizing the established link between tissue function, metabolism, and hemodynamics. This report focuses on recent applications of MR-based cerebral blood volume (CBV) imaging in humans. Our methodology uses high-speed "single-shot" or echo planar imaging techniques, which provide the necessary temporal resolution for mapping the rapid cerebral transit of contrast agents. These MR CBV mapping techniques have been used to study normal human brain task activation and in the clinical study of patients with brain tumors. In the latter, positron emission tomography imaging was used for functional metabolic and CBV correlation. Susceptibility contrast CBV imaging should allow us to improve our understanding of the relationship between the detailed physiology and morphology of the microvascular bed and functional attributes of the brain. These techniques can be applied to understanding fundamental questions of cognitive neuroscience and can aid in improving diagnostic sensitivity and specificity in various neuropathologies.

Functional mapping of the human visual cortex by magnetic resonance imaging

Knowledge of regional cerebral hemodynamics has widespread application for both physiological research and clinical assessment because of the well-established interrelation between physiological function, energy metabolism, and localized blood supply. A magnetic resonance technique was developed for quantitative imaging of cerebral hemodynamics, allowing for measurement of regional cerebral blood volume during resting and activated cognitive states. This technique was used to generate the first functional magnetic resonance maps of human task activation, by using a visual stimulus paradigm. During photic stimulation, localized increases in blood volume (32 +/- 10 percent, n = 7 subjects) were detected in the primary visual cortex. Center-of-mass coordinates and linear extents of brain activation within the plane of the calcarine fissure are reported.

Contrast agents and cerebral hemodynamics

Contrast-enhanced magnetic resonance imaging of regional cerebral hemodynamics is discussed. Techniques for measuring cerebral blood volume (CBV) have been validated in animal models and have recently been applied to human studies. Factors affecting CBV measurement in pathologic tissue are addressed. Extension of these techniques to the measurement of cerebral blood flow is presented.