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At least 613 records · Page 34Linked to original sources
PubMed2001

Putting spatial attention on the map: timing and localization of stimulus selection processes in striate and extrastriate visual areas.

This study investigated the cortical mechanisms of visual-spatial attention in a task where subjects discriminated patterned targets in one visual field at a time. Functional magnetic imaging (fMRI) was used to localize attention-related changes in neural activity within specific retinotopic visual areas, while recordings of event-related brain potentials (ERPs) traced the time course of these changes. The earliest ERP components enhanced by attention occurred in the time range 70-130 ms post-stimulus onset, and their neural generators were estimated to lie in the dorsal and ventral extrastriate visual cortex. The anatomical areas activated by attention corresponded closely to those showing increased neural activity during passive visual stimulation. Enhanced neural activity was also observed in the primary visual cortex (area V1) with fMRI, but ERP recordings indicated that the initial sensory response at 50-90 ms that was localized to V1 was not modulated by attention. Modeling of ERP sources over an extended time range showed that attended stimuli elicited a long-latency (160-260 ms) negativity that was attributed to the dipolar source in area V1. This finding is in line with hypotheses that V1 activity may be modulated by delayed, reentrant feedback from higher visual areas.

Adolescent↗
PubMedDate not supplied

Geomorphology, acoustic backscatter, and processes in Santa Monica Bay from multibeam mapping.

Santa Monica Bay was mapped in 1996 using a high-resolution multibeam system, providing the first substantial update of the submarine geomorphology since the initial compilation by Shepard and Emery [(1941) Geol. Soc. Amer. Spec. Paper 31]. The multibeam mapping generated not only high-resolution bathymetry, but also coregistered, calibrated acoustic backscatter at 95 kHz. The geomorphology has been subdivided into six provinces; shelf, marginal plateau, submarine canyon, basin slope, apron, and basin. The dimensions, gradients, and backscatter characteristics of each province is described and related to a combination of tectonics, climate, sea level, and sediment supply. Fluctuations of eustatic sea level have had a profound effect on the area; by periodically eroding the surface of Santa Monica plateau, extending the mouth of the Los Angeles River to various locations along the shelf break, and by connecting submarine canyons to rivers. A wetter glacial climate undoubtedly generated more sediment to the rivers that then transported the increased sediment load to the low-stand coastline and canyon heads. The trends of Santa Monica Canyon and several bathymetric highs suggest a complex tectonic stress field that has controlled the various segments. There is no geomorphic evidence to suggest Redondo Canyon is fault controlled. The San Pedro fault can be extended more than 30 km to the northwest by the alignment of a series of bathymetric highs and abrupt changes in direction of channel thalwegs.

Acoustics↗
PubMed2002

From sequence to phenotype: reverse genetics in Drosophila melanogaster.

There has been a long history of innovation and development of tools for gene discovery and genetic analysis in Drosophila melanogaster. This includes methods to induce mutations and to screen for those mutations that disrupt specific processes, methods to map mutations genetically and physically, and methods to clone and characterize genes at the molecular level. Modern genetics also requires techniques to do the reverse to disrupt the functions of specific genes, the sequences of which are already known. This is the process referred to as reverse genetics. During recent years, some valuable new methods for conducting reverse genetics in Drosophila have been developed.

Animals↗
PubMed2003

MAP-LC3, a promising autophagosomal marker, is processed during the differentiation and recovery of podocytes from PAN nephrosis.

Microtubule-associated protein 1 light chain 3 (LC3) is a unique modifier protein. LC3-I, the cytosolic form, is modified to LC3-II, the membrane-bound form, by a mechanism similar to ubiquitylation by E1- and E2-like enzymes, Apg7p and Apg3p, respectively. In the present study, we found that LC3-I is processed to LC3-II during the differentiation and recovery from puromycin aminonucleoside-induced nephrosis of podocytes. LC3 is especially expressed in the podocytes of rat kidney as the membrane-bound form LC3-II. Biochemical analysis using a conditionally immortalized mouse podocyte clone (MPC) revealed that LC3-I is processed to LC3-II during the differentiation of cells into mature podocytes and accumulates in the membrane-rich fraction of the cell lysate. LC3-II-localized vesicles, which differ from lysosomes and endosomes, in differentiated MPC cells are morphologically similar to autophagic vacuoles during starvation-induced autophagy. During starvation-induced autophagy, autophagosomes fuses with lysosome and LC3-II on autophagosomes is finally degraded by lysosomal proteases. However, in differentiated MPC cells, little LC3-II on the vesicles is degraded by lysosomal proteases, suggesting that little LC3-II-localized vesicles in differentiated MPC cells fuse with lysosome. Furthermore, the LC3-II level in differentiated MPC cells increases with recovery from damage caused by experimental puromycin aminonucleoside-induced nephrosis. These results suggest that LC3-II-localized vesicles play an important role in the physiological function of podocytes.

Animals↗
PubMed2003

From immunome to vaccine: epitope mapping and vaccine design tools.

Since the publication of the complete genome of a pathogenic bacterium in 1995, more than 50 bacterial pathogens have been sequenced and at least 120 additional projects are currently underway. Faced with the expanding volume of information now available from genome databases, vaccinologists are turning to epitope mapping tools to screen vaccine candidates. Bioinformatics tools such as EpiMatrix and Conservatrix, which search for unique or multi-HLA-restricted (promiscuous) T cell epitopes and can find epitopes that are conserved across variant strains of the same pathogen, have accelerated the process of epitope mapping. Additional tools for screening epitopes for similarity to 'self' (BlastiMer) and for assembling putative epitopes into strings if they overlap (EpiAssembler) have been developed at EpiVax. Tools that map proteasome cleavage sires are available on the Internet. When used together, these bioinformatics tools offer a significant advantage over traditional methods of vaccine design since high throughput screening and design is performed in silico, followed by confirmatory studies in vitro. These new tools are being used to develop novel vaccines and therapeutics for the prevention and treatment of infectious diseases such as HIV, hepatitis C, tuberculosis, and some cancers. More recent applications of the tools involve deriving novel vaccine candidates directly from whole genomes, an approach that has been named 'genome to vaccine'.

Allergy and Immunology↗
PubMed2006

Deformable structure registration of bladder through surface mapping.

Cumulative dose distributions in fractionated radiation therapy depict the dose to normal tissues and therefore may permit an estimation of the risk of normal tissue complications. However, calculation of these distributions is highly challenging because of interfractional changes in the geometry of patient anatomy. This work presents an algorithm for deformable structure registration of the bladder and the verification of the accuracy of the algorithm using phantom and patient data. In this algorithm, the registration process involves conformal mapping of genus zero surfaces using finite element analysis, and guided by three control landmarks. The registration produces a correspondence between fractions of the triangular meshes used to describe the bladder surface. For validation of the algorithm, two types of balloons were inflated gradually to three times their original size, and several computerized tomography (CT) scans were taken during the process. The registration algorithm yielded a local accuracy of 4 mm along the balloon surface. The algorithm was then applied to CT data of patients receiving fractionated high-dose-rate brachytherapy to the vaginal cuff, with the vaginal cylinder in situ. The patients' bladder filling status was intentionally different for each fraction. The three required control landmark points were identified for the bladder based on anatomy. Out of an Institutional Review Board (IRB) approved study of 20 patients, 3 had radiographically identifiable points near the bladder surface that were used for verification of the accuracy of the registration. The verification point as seen in each fraction was compared with its predicted location based on affine as well as deformable registration. Despite the variation in bladder shape and volume, the deformable registration was accurate to 5 mm, consistently outperforming the affine registration. We conclude that the structure registration algorithm presented works with reasonable accuracy and provides a means of calculating cumulative dose distributions.

Algorithms↗
PubMed2005

Improved correlation of histological data with DCE MRI parameter maps by 3D reconstruction, reslicing and parameterization of the histological images.

Due to poor correlation of slice thickness and orientation, verification of radiological methods with histology is difficult. Thus, a procedure for three-dimensional reconstruction, reslicing and parameterization of histological data was developed, enabling a proper correlation with radiological data. Two different subcutaneous tumors were examined by MR microangiography and DCE-MRI, the latter being post-processed using a pharmacokinetic two-compartment model. Subsequently, tumors were serially sectioned and vessels stained with immunofluorescence markers. A ray-tracing algorithm performed three-dimensional visualization of the histological data, allowing virtually reslicing to thicker sections analogous to MRI slice geometry. Thick slices were processed as parameter maps color coding the marker density in the depth of the slice. Histological 3D reconstructions displayed the diffuse angioarchitecture of malignant tumors. Resliced histological images enabled specification of high enhancing areas seen on MR microangiography as large single vessels or vessel assemblies. In orthogonally reconstructed histological slices, single vessels were delineated. ROI analysis showed significant correlation between histological parameter maps of vessel density and MR parameter maps (r=0.83, P=0.05). The 3D approach to histology improves correlation of histological and radiological data due to proper matching of slice geometry. This method can be used with any histological stain, thus enabling a multivariable correlation of non-invasive data and histology.

Algorithms↗
PubMed2004

Low-cost 7-channel magnetocardiographic system for unshielded environment.

The purpose of this work was to develop a low-cost magnetocardiography (MCG) system for use at cardiology clinics, without any magnetic shielding. The device consists of seven channels: four signal and three reference channels. The signal channels are based on relaxation-oscillation SQUIDs. The reference channels are assembled into an orthogonal reference vector magnetometer (RVM). The 11-litre magnetotransparent helium cryostat allows operation for 5 days without refilling. With the 4-channel device, it is possible to perform measurements of magnetic maps in a standard 36-point grid so that only 9 spatial positions of the multichannel magnetometer are used; acquiring 30 s of data for each observation point takes about 10-15 minutes. Software was developed for the device adjustment, data acquisition, and data processing, including preliminary processing, MCG-mapping, and medical analysis. Digital filtering, adaptive noise compensation, and averaging are used to suppress magnetic noises. Cardiac sources were modelled with effective magnetic dipoles, and with estimated 2D current density distributions at a frontal plane.

Costs and Cost Analysis↗
PubMed1975

Temporal genetic mapping in the blue-green alga Anacystis nidulans using ethyl methanesulphonate.

Cultures of the blue-green alga Anacytis nidulans were synchronized with respect to DNA synthesis as well as cell division. Application of ethyl methanesulphonate at different stages of replication resulted in a peak of mutation frequency for different genetic markers; this peak can be accounted for in terms of the involvement of repair processes. A temporal map of 19 markers has been constructed by this method. Comparison of gene position obtained by temporal mapping indicates that either bidirectional replication or unidirectional replication from more than one origin occurs.

Cell Division↗
PubMed1999

Spatial mapping of T2 and gadolinium-enhancing T1 lesion volumes in multiple sclerosis: evidence for distinct mechanisms of lesion genesis?

It is generally believed that most T2-weighted (T2) lesions in the central white matter of patients with multiple sclerosis begin with a variable period of T1-weighted (T1) gadolinium (Gd) enhancement and that T1 Gd-enhancing and T2 lesions represent stages of a single pathological process. Lesion probability maps can be used to test this hypothesis by providing a quantitative description of the spatial distribution of these two types of lesions across a patient population. The simplest prediction of this hypothesis would be that the spatial distributions of T1 Gd-enhancing and T2 lesions are identical. We generated T1 Gd-enhancing and T2 lesion probability maps from 19 patients with relapsing-remitting multiple sclerosis. There was a significantly higher probability (P = 0.001) for T2 lesions to be found in the central relative to the peripheral white matter (risk ratio 4.5), although the relative distribution of T1 Gd-enhancing lesions was not significantly different (P = 0.7) between central and peripheral white matter regions (risk ratio 0.6). Longitudinal data on the same population were used to demonstrate a similar distribution asymmetry between new T1 Gd-enhancing and new T2 lesions that developed over the course of 1 year. Alternative hypotheses to explain this observation were tested. We found no spatial difference in the likelihood of development of persistent T2 lesions following T1 Gd enhancement. The relative distribution of T1 Gd-enhancing lesions was shown to be independent of the dose of Gd contrast agent and the frequency of scanning. Our findings suggest that a proportion of the periventricular T2 lesion volume may arise from mechanisms other than those associated with early breakdown of the blood-brain barrier leading to T1 Gd enhancement.

Adult↗
PubMed1990

The neuroendocrine polypeptide 7B2 is a precursor protein.

The neuroendocrine protein 7B2 is highly conserved and widely present in neurons and endocrine cells. It is coexpressed with the prohormone proopiomelanocortin (POMC) in the intermediate lobe of the pituitary gland of Xenopus laevis. To study the biosynthesis of 7B2 in this amphibian, an anti-7B2 monoclonal antibody was used in immunoprecipitation analysis of newly synthesized radiolabeled proteins, produced by pulse and pulse-chase-incubated neurointermediate lobes. Following a 15-min pulse incubation, a single immunoprecipitable protein of 25 kDa was synthesized. During subsequent chase incubation, this newly synthesized 7B2 protein was processed to an 18-kDa immunoprecipitable form. Analysis of the chase incubation medium revealed that only the 18-kDa processed product of 7B2, and not 7B2 itself, had been secreted. This secretion is a regulated process because it was blocked completely by the dopamine receptor agonist apomorphine. A study of protein biosynthesis in lobes treated with tunicamycin to prevent N-linked glycosylation showed that in contrast to POMC and an 18-kDa derivative of POMC, neither 7B2 nor its 18-kDa derivative was glycosylated. Chemical and enzymatic peptide mapping showed that processing of 7B2 occurs in the carboxyl-terminal region. The function of the 7B2 protein is unknown; the present results show that 7B2 itself is a precursor molecule and can only have an intracellular function whereas an extracellular function can only be attributed to 7B2-derived peptides.

Amino Acid Sequence↗
PubMed1997

Nested reentrant and recurrent computation in early vision: a Bayesian neuromorphic model applied to hyperacuity.

Hyperacuity is demonstrated in a neuromorphic model of the early visual system. The model incorporates Bayesian principles which are embodied in the dynamics of reentrant and recurrent feedback processes. Each retinotopically mapped area in the model represents a transformation of data from the visual field. Sensory information propagates in a bottom-up direction from one area to the next, while information based on Bayesian priors propagates in a top-down direction through reentrant connections. The 'bottom-up' and 'top-down' information maintain a separate existence in distinct layers of the model, but they interact through local connections within each area. Transformations between one area and the next are defined by the reentrant synaptic connections between areas, while local prior probability maps are defined by local recurrent connections within layers. The representation of hyperacuity is accomplished using a model of functional multiplicity: the large ratio of neurons in striate cortex compared with the number of afferent fibers projecting from the lateral geniculate nucleus. High functional multiplicity, in conjunction with hierarchical reentrant processing, allows the model to represent a fine-grained restoration of the line structure of visual input.

Bayes Theorem↗
PubMed2005

On pure word deafness, temporal processing, and the left hemisphere.

Pure word deafness (PWD) is a rare neurological syndrome characterized by severe difficulties in understanding and reproducing spoken language, with sparing of written language comprehension and speech production. The pathognomonic disturbance of auditory comprehension appears to be associated with a breakdown in processes involved in mapping auditory input to lexical representations of words, but the functional locus of this disturbance and the localization of the responsible lesion have long been disputed. We report here on a woman with PWD resulting from a circumscribed unilateral infarct involving the left superior temporal lobe who demonstrated significant problems processing transitional spectrotemporal cues in both speech and nonspeech sounds. On speech discrimination tasks, she exhibited poor differentiation of stop consonant-vowel syllables distinguished by voicing onset and brief formant frequency transitions. Isolated formant transitions could be reliably discriminated only at very long durations (> 200 ms). By contrast, click fusion threshold, which depends on millisecond-level resolution of brief auditory events, was normal. These results suggest that the problems with speech analysis in this case were not secondary to general constraints on auditory temporal resolution. Rather, they point to a disturbance of left hemisphere auditory mechanisms that preferentially analyze rapid spectrotemporal variations in frequency. The findings have important implications for our conceptualization of PWD and its subtypes.

Adult↗
PubMed2005

Molecular mapping of periodontal tissues using infrared microspectroscopy.

BACKGROUND: Chronic periodontitis is an inflammatory disease of the supporting structures of the teeth. Infrared microspectroscopy has the potential to simultaneously monitor multiple disease markers, including cellular infiltration and collagen catabolism, and hence differentiate diseased and healthy tissues. Therefore, our aim was to establish an infrared microspectroscopy methodology with which to analyze and interpret molecular maps defining pathogenic processes in periodontal tissues. METHODS: Specific key cellular and connective tissue components were identified by infrared microspectroscopy and using a chemical imaging method. RESULTS: Higher densities of DNA, total protein and lipid were revealed in epithelial tissue, compared to the lower percentage of these components in connective tissue. Collagen-specific tissue mapping by infrared microspectroscopy revealed much higher levels of collagen deposition in the connective tissues compared to that in the epithelium, as would be expected. Thus inflammatory events such as cellular infiltration and collagen deposition and catabolism can be identified by infrared microspectroscopy. CONCLUSION: These results suggest that infrared microspectroscopy may represent a simple, reagent-free, multi-dimensional tool with which to examine periodontal disease etiology using entirely unprocessed tissue sections.

Journal Article↗
PubMed2003

Improvement in variability of the horizontal meridian of the primary visual area following high-resolution spatial normalization.

We investigated the decrease in intersubject functional variability in the horizontal meridian (HM) of the primary visual area (V1) before and after individual anatomical variability was significantly reduced using a high-resolution spatial normalization (HRSN) method. The analyzed dataset consisted of 10 normal, right-handed volunteers who had undergone both an O-15 PET study, which localized retinotopic visual area (V1), and a high-resolution anatomical MRI. Individual occipital lobes were manually segmented from anatomical images and transformed into a common space using an in-house high-resolution regional spatial normalization method called OSN. Individual anatomical and functional variability was quantified before and after HRSN processing. The reduction of individual anatomical variability was judged by the reduction in gray matter (GM) mismatch and by the improvement in overlap frequency between individual calcarine sulci. The reduction in intersubject functional variability of HM was determined by measurements of the overlap frequency between individual HM areas and by improvement in intersubject Z-score maps. The HRSN processing significantly reduced the individual anatomical variability: GM mismatch was reduced by a factor of two and the mean calcarine sulcus overlap frequency was improved from 37 to 68%. The reduction in functional variability was more subtle. However, both HM mean overlap (increased from 18 to 28%) and the average Z-score (increased from 2.2 to 2.55) were significantly improved. Although, functional registration was significantly improved by matching sulci, there was still residual variability. This is believed to be the variability of individual areas within the calcarine sulcus, and cannot be resolved by sulcal match. Thus, the proposed methodology provides an efficient, unbiased, and automated way to study structure-functional relationship in human brain.

Brain↗
PubMed1995

Dynamic power and coherence analysis of ultra short-term cognitive processes--a methodical study.

This EEG mapping study was designed to explore ultra short-term cognitive processes in human thinking. The EEG was recorded while the subjects performed two tasks randomly mixed in time: category concept activation and pattern comparison. A novel approach is introduced to examine these tasks by means of band powers and coherence with high time and frequency resolution. This approach is based on general adaptive principles and the adaptive fit of a bivariate linear model (ARMA model) with time varying parameters, and allows the estimation of band powers and coherences continuously in time. The application of mapping to these spectral parameter functions results in map sequences of band powers, and local band coherences. It was proved that these map sequences of the frequency band 13-20Hz reflect the dynamic behaviour of information processing in a characteristic topographical manner. Based on these dynamic topographical examinations, conceptual and imaginal representations are distinguishable.

Brain Mapping↗