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Neocortex

The neocortex is the largest and most evolutionarily recent part of the cerebral cortex in mammals.
It is responsible for higher cognitive functions, such as sensory perception, motor command, spatial reasoning, and language.
Composed of six distinct layers, the neocortex plays a crucial role in information processing and neural network dynamics.
Studying the optimization of neocortical structure and function is essential for understanding brain health, cognition, and neurological disorders.
PubCompare.ai's AI-powered tools can help researchers navigate the latest literature, preprints, and patents to identify the most accurate and reproducible protocols for neocortex optimization, enhancing their research effords and advancing the field of neuroscience.

Most cited protocols related to «Neocortex»

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Publication 2015
Adult Animals Anti-Antibodies Cell Nucleus Chromatography, Affinity G-substrate Institutional Animal Care and Use Committees Mice, House Neocortex

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Publication 2019
Brain Cells Dietary Fiber Dissection Fetal Tissue Fetus Gene Expression Genes Genetic Markers Homo sapiens Neocortex Pollen RNA-Seq Single-Cell RNA-Seq Tissues Transcription, Genetic

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Publication 2008
Mice, House Neocortex Protoplasm Rattus norvegicus Seahorses Silicon Sleep

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Publication 2014
alexa fluor 488 Amygdaloid Body Animals Brain Cloning Vectors Fluorescent Dyes Males Mice, Inbred C57BL Microscopy Neocortex Olfactory Cortex Seahorses Stains
Functional connectivity analysis was performed by a meta-analysis of published functional imaging results. The concept behind mapping functional connectivity via meta-analysis originates from the notion that functional connectivity should represent the correlation of spatially removed neurophysiologic events, which implies that functionally connected regions should coactivate above chance in functional imaging studies.
This concept of meta-analytic connectivity modeling (MACM) was first used to investigate functional connectivity based on the frequency distributions of concurrent activation foci (Koski and Paus, 2000 (link)). Following the emergence of databases on functional neuroimaging results (Fox and Lancaster, 2002 (link); Laird et al., 2009a ), this approach was extended to provide voxelwise co-occurrence maps across the whole brain (Toro et al., 2008 (link)). The concept of MACM has then been integrated with the activation likelihood estimation (ALE) approach for quantitative meta-analysis (Turkeltaub et al., 2002 (link)) to yield functional connectivity maps of the human amygdala (Robinson et al., 2009 (link)). More recently, finally, the mapping of functional connectivity via coordinate-based meta-analysis has been validated by comparison to resting-state connectivity (Smith et al., 2009 (link)), showing very good concordance between both approaches.
Here, MACM was performed using the BrainMap database (www.brainmap.org), which contains a summary of the results for (at the time of analysis) ~6500 individual functional neuroimaging experiments. Given the high standardization of neuroimaging data reports and in particular the ubiquitous adherence to standard coordinate systems, the results reported in these studies can readily be compared to each other with respect to the location of significant activation. Using this broad pool of neuroimaging results, MACM can then be used to test for associations between activation probabilities of different areas. Importantly, this inference is performed independently of the applied paradigms or other experimental factors, but rather is solely based on the likelihood of observing activation in a target region [e.g., the premotor cortex (PMC)], given that activation is present within the seed area (e.g., OP 1 or OP 4). Results from such an analysis are therefore robust across many different experimental designs. Database-aided MACM that assesses the coactivation pattern of OP 1 and OP 4 as defined by their MPM representation across a large number of imaging studies should hence allow the delineation and comparison of their functional connectivity. However, functional connectivity per se only allows the delineation of interacting networks but not the causal influences therein. In practice, MACM was performed using the following approach. Studies causing activation within OP 1 or OP 4 were obtained through the BrainMap database. Criteria for retrieval were as follows: only fMRI and positron emission tomography studies in healthy subjects that reported functional mapping experiments containing a somatosensory or motor component were considered. Those investigating age, gender, disease, or drug effects were excluded. No further constraints (e.g., on acquisition and analysis details, experimental design, or stimulation procedures) were enforced. Hereby we tried to avoid any bias in the data, but rather pool across as many different studies as possible.
Experiments that activate OP 1 or OP 4 were identified by comparing the foci reported for each of the ~1500 eligible experiments (functional mapping experiments available at the time of analysis that contained a somatosensory or motor component) in the BrainMap database to the cytoarchitectonic location of these cortical fields in the same reference space. The experiments used for the analysis of the functional connectivity of OP 1 (S2) were defined by the fact that (following correction for coordinates reported according to the Talairach reference space) they featured at least one focus of activation within the volume of cortex histologically delineated as OP 1, but no activation within the histologically delineated volume of OP 4. Hereby, the experiments that activated OP 1 or OP 4 were objectively identified. That is, activation within our seed areas was assessed observer independently by comparing the coordinates reported for all studies within the BrainMap database to the anatomical location of cytoarchitectonically defined OP 1 and OP 4 within the same reference space, independent of how this activation was termed in the original publication. Hereby, we avoided any influence of the fact that various labels have been used for activation in the region, e.g., SII, parietal operculum, Brodmann’s area (BA) 43, BA 40, parietal cortex, or subcentral gyrus. Studies activating exclusively one of these two areas (either OP 1 or OP 4) were defined by at least one reported focus in the MPM representation of this area and the absence of any reported activation focus in the respective other area or, to increase specificity, a four voxel border zone between OP 1 and OP 4.
Given that OP 1 (S2) and OP 4 (PV) share a common border at which the face, hands, and feet are represented in either area, and acknowledging the fact that these two cortical fields are difficult to differentiate from each other functionally in nonhuman primates, the question evidently arises as to whether isolated activation in only one of these areas may be conceptually meaningful or most likely artificial. However, while S2 and PV tend to show concurrent activation in many experiments, there is already good evidence for differences in response properties between the various cortical fields on the parietal operculum of nonhuman primates (Robinson and Burton, 1980 (link); Hsiao et al., 1993 (link); Fitzgerald et al., 2004 (link), 2006a (link), 2006b (link)). Compared with electrophysiological experiments in monkeys, however, the range of tasks that may be assessed is considerably larger in human functional imaging experiments, including, in particular, experimental paradigms that investigate cognitive or affective influences on sensory-motor processing. It thus seems plausible that differences in response properties of opercular fields that have not yet been reported in monkeys may be unraveled in humans simply because the necessary paradigms are difficult to perform in animals. Moreover, differential response properties may manifest themselves as apparent shifts in somatotopic location in functional imaging data, in particular if differential contrasts between two conditions are considered. In this case, homogenous activation of both cortical fields by one condition may offset, leaving only an isolated peak of activation well within the cortical field that was more responsive to the other condition. This phenomenon, to which neurophysiologic mechanisms at the neuronal level may also contribute, has been discussed in great detail in a recent study by Burton et al. (2008b) (link). It is therefore very well conceivable that isolated activations within OP 1 or OP 4 are observed in human neuroimaging data despite their close proximity and the similarities in response characteristics.
It should be noted that the seeds representing OP 1 and OP 4, respectively, in the functional connectivity analysis were defined bilaterally. This approach was based on the observation that activation of the secondary somatosensory cortex is frequently bilateral, resulting in a much reduced and ultimately insufficient sample of studies reporting unilateral activation. These, however, would be required for a separate analysis of ipsilateral and contralateral connections.
Publication 2010
Amygdaloid Body Animals Brain Mapping Brodmann Area 43 Cognition Contrast Media Cortex, Cerebral Face fMRI Foot Gender Healthy Volunteers Homo sapiens Microtubule-Associated Proteins Monkeys Neocortex Neurons Opercular Cortex Parietal Lobe Plant Embryos Positron-Emission Tomography Premotor Cortex Primates Somatosensory Cortex, Secondary Supramarginal Gyrus

Most recents protocols related to «Neocortex»

The validation of autoencoders was made by comparing the different variants of autoencoders with PCA, ICA and Isomap. The chosen datasets, 95 in number and denominated as simulations, originate from the Department of Engineering, University of Leicester UK and are publicly available. Each simulation is a dataset. The creation of these simulations was based on recordings from the neocortex of a monkey. They were generated using 594 different spike shapes [45 (link)]. The original study that introduces the simulations [45 (link)] also reviews different clustering algorithms and their results. Out of 20 different units, these algorithms were able to detect 10 in the best case.
The datasets were generated based on a real dataset recorded “in vivo”. The waveform contains 316 points originally sampled at 96 KHz; afterwards this frequency was reduced to 24KHz, therefore 79 samples describe a spike. Being synthetic datasets, each of these spikes has a label, which allows for the use of external metrics to evaluate performance. Each simulation contains a multi-unit cluster, which is the noise, and a number of clusters that varies between 2 and 20. Each unique number of clusters has 5 simulations. Thus, there are 5 simulations with 2 clusters, 5 simulations with 3 clusters, and so on.
All but one of the clusters are single-units between 0 and 50μm away from the electrode. The firing rate follows a Poisson distribution with a mean between 0.1 and 2Hz. The amplitudes follow a normal distribution and have been scaled to values between 0.9 and 2 to simulate real data. No spikes with temporal overlapping are present in the data, such that spikes have at least 0.3ms between them.
The generated multi-unit cluster was added in order to increase the complexity of clustering for the tested algorithms. The simulated multi-unit contains 20 spike shapes, each of the 20 neurons firing being between 50–140μm away from the electrode. The amplitude of the spikes was fixed to 0.5, with an overall composite firing rate of 5Hz, with each of the 20 individual composing neurons having a firing rate mean of 0.25Hz following an independent Poisson distribution. Here, in order to increase clarity, the multi-unit cluster is always color-coded in white in all figures.
To evaluate the proposed approach in comparison with other state-of-the-art methods we have chosen the following 4 simulations out of the 95 available as they are representative of the issues that are present in feature extraction methods and allow for the evaluation of the methods on varying numbers of clusters covering a wide range and enabling a comprehensive evaluation of performance:
These simulations can also be viewed in Fig 3 through the use of PCA to reduce the dimensionality from 79 to 2. The overlapping clusters produced by PCA can be clearly seen in Fig 3, in none of the datasets is it able to perfectly separate all clusters.
Publication 2023
Monkeys Neocortex Neurons Vision
Human brain tissue for this study was obtained from the Department of Pathology and Laboratory Medicine at UT Health Science Center at Houston. Blocks of tissue were dissected from the brains of three deceased individuals (14-year-old female, 75-year-old male, and 97-year-old female). To be consistent with the animal study, the somatosensory and visual cortex were chosen to perform the microglia and autofluorescence analysis. Formalin-fixed paraffin-embedded sections were immunostained with Iba1 antibody using tyramide signal amplification method (Biotium). Briefly, after deparaffinization, the sections were blocked in 0.3% hydrogen peroxide and blocking buffer (1% bovine serum albumin with 0.5% Triton X-100 in PBS), serially, and then the sections were incubated with anti-human Iba1 mouse monoclonal antibody (1:200; FUJIFILM, catalog no. NCNP27). The primary antibody was detected by horseradish peroxidase–conjugated goat anti-mouse secondary antibody (1:200) and colorized with CF488A tyramide dye in amplification buffer. Without autofluorescence elimination, the sections were coverslipped using Fluoroshield with DAPI mounting solution (Sigma-Aldrich). To obtain the representative images, the neocortex and subcortical white matter was scanned using a Leica THUNDER Imager DMi8 under 10× lens, and the high-magnification images (63× lens) were also taken from the same regions.
Publication 2023
Animals Antibodies, Anti-Idiotypic Brain Buffers DAPI Females Fluoroshield Formalin Goat Homo sapiens Horseradish Peroxidase Immunoglobulins Lens, Crystalline Males Mice, House Microglia Monoclonal Antibodies Neocortex Paraffin Peroxides Serum Albumin, Bovine Tissues Tritium Triton X-100 Visual Cortex White Matter
Timothy Wright, PhD, from Hospital for Special Surgery, New York, NY, assisted in the design of 1G posterior stabilized implant, which is technically an evolutionary modification of IB-II. Unlike IB-II, the 1G system has cruciate retaining (CR) in addition to posterior stabilized (PS) implants. The CR implant was designed and developed by StelKast.
The feedback from 1G users and the results from explanted components after revision retrieval paved the way for a design change evaluated by a validated computational finite element model analysis. Also, 1G PS implant had a symmetric patella flange whereas the CR implant had an anatomic patella flange, and the options of femoral sizes were limited to a few in 1G knee system.
The new design has created more tibio- and patello-femoral contact areas for the PS and less for the CR implants. These changes have resulted in a more consistent range of contact areas in the 2G system between CR and PS implants, leading to a more similar wear pattern between the two.
The following changes have been made to the 1G system femoral component: debulking, implementing an asymmetric patellar flange and trochlear groove, reducing the medial-lateral profile of the anterior flange, reducing the posterior condyle length, and modifying to a trapezoidal anterior-posterior profile. For the tibial inserts, the changes included adding patellar tendon relief, implementing a round rather than a pointed post for the PS insert, and reducing the posterior lip (Figs. 1 and 2). The posterior slope of the CR insert was increased to 6°. Two different inserts, high flexion (HF) and ultra-congruent (UC), are available for the new CR implants. The UC insert is designed to offer greater conformance to the femur in the sagittal plane, an increased posterior lip height, resistance to subluxation, and an elevated anterior wall height relative to HF insert (Fig. 3). All inserts used with CR 2G in this study were UC, and were HF for 1G. The design changes were intended to improve the function of 2G over that of 1G.

1G and 2G tibial and femoral components (PS and CR) and the corresponding inserts

1G and 2G tibial inserts used in this study

Comparison between UC and HF inserts. Conformity percentage has been measured at various degrees of knee flexion. The highest conformance is between full extension and 15° of knee joint flexion HF = High Flexion; UC = Ultra Congruent

All statistical analyses were performed by SPSS statistical software (version 20, IBM, Armonk, NY, USA). Independent two-sample t-tests were used to compare the means between two groups with continuous data. A Chi-squared test was used to compare two frequencies between the two groups. A p-value ≤ 0.05 was considered to be significant. For the cases lost to follow up, the latest available follow-up data were used to determine the outcome at that point. Based on a power analysis to determine the sample size, it was found that If the true difference between the means of the two groups was 2.1(the minimum difference found between average PRO scores), we would need to study 65 subjects in each group to be able to reject the null hypothesis that there was no difference between the groups with a probability (power) of 0.8. The Type I error probability associated with testing the null hypothesis was 0.05.
Publication 2023
Biological Evolution Condyle Femur Joint Subluxations Knee Knee Joint Ligamentum Patellae Neocortex Operative Surgical Procedures Patella Tibia Trapezoid Bones Trochlear Notch
NMA was carried out for the various imaging modalities under study. We also carried out patient-based analyses for NMA. A direct comparison was conducted using a traditional pairwise meta-analysis, and the results had a 95% credible interval in sensitivity (SEN), specificity (SPE), positive predictive value (PPV), negative predictive value (NPV), accuracy and diagnostic OR (DOR); see details in online supplemental information 2. Based on the heterogeneity, the random-effect model was used for further analysis; in the absence of heterogeneity, a fixed-effect model was used. Bayesian NMA and specific graphical analysis used the ‘gemtc’ package in R software V.4.1.1 (R Foundation for Statistical Computing) and Stata V.15.1 software (StataCorp, College Station, Texas, USA).14 (link) Using the previously described technical implementation of the Bayesian method using R software, a prior distribution (prior probability) was identified. The likelihood was calculated from the existing data and a Bayesian hierarchical model was created in NMA. Third, the prior distribution and likelihood were used in a Markov chain Monte Carlo (MCMC) simulation and a distribution that best represents the posterior distribution was set. The probability of stable distribution and the area under the posterior distribution function was determined by MCMC simulation, and statistical reasoning was carried out for the treatment effects with the posterior distribution (see details in online supplemental information 3 and online supplemental figure S2). Therefore, Bayesian NMA was used to analyse the posterior distribution even when it was not a standard distribution. For the MCMC simulation, a model that showed the best convergence was selected by adjusting the number of chains appropriate for multichain, the data for removal of the initial effect (burn-in), the number of iterations and the extraction interval (thin). In models of both patient-based and lesion-based NMA, we selected a random-effect model with 4 chains, 5000 burn-ins, 10 000 iterations and an interval of 1 to remove the effect of the initial values, increase the iterations and extraction interval and minimise the MCMC error and stability of various plots.15 16 (link) We determined the consistency by examining the agreement between the direct and indirect treatment effects. Consistency of the assumptions of NMA is a critical measure that determines the applicability of NMA results. The node-splitting analysis method was used to assess inconsistency for any treatment in the network because it evaluates whether direct and indirect evidence for a particular node is consistent. To assist in the interpretation of diagnostic results, the SUCRA was used to calculate the probability of each imaging modality being the most effective diagnostic method using a Bayesian approach with probability values, and the greater the SUCRA value, the better was the rank of the intervention17 18 (link); see details in online supplemental information 4, online supplemental figure S3, online supplemental table S1.
Publication 2023
Diagnosis Genetic Heterogeneity Hypersensitivity Neocortex Outpatients Patients
Evaluation of neuropathology was performed with blinding to treatment group. Histologic sections from the anterior third of the brain, encompassing the frontal lobes, were used to estimate the ipsilateral and contralateral hemisphere volume of structurally normal appearing cerebral cortex and the volume of peri-lesion subcortical white matter. Every 12th serial coronal section was stained with 0.1% Luxol fast blue followed by 0.1% cresyl violet staining after dehydration in a series of increasing alcohol concentrations. Luxol fast blue staining was used to identify white matter. Cresyl violet was used to counterstain tissue sections for lesion identification and neocortex loss. Using Image J software, we traced the area of each hemisphere excluding the contusion injury (cavity plus pale cresyl violet stained tissue) and the area of white matter in each hemisphere. We calculated the volume by summing section area × 600 µm spacing between sections along the entire axial length of the anterior third of the cerebral hemisphere. The percentage of contusion injury volume was calculated 100 (left–right)/left hemisphere volume. The percentage of white matter volume loss was calculated as 100 (left–right)/left white matter volume. For this analysis, 15–20 brain sections were used to calculate the percentage of contusion injury volume and the percentage of white matter volume loss for each brain.
Publication 2023
Brain Cerebral Hemispheres Contusions Cortex, Cerebral cresyl violet Dehydration Dental Caries Ethanol Injuries Lobe, Frontal Luxol Fast Blue MBS Neocortex Tissues Tissue Stains White Matter

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More about "Neocortex"

The neocortex, also known as the cerebral cortex or neopallium, is the largest and most recently evolved part of the mammalian brain.
This intricate structure is responsible for higher cognitive functions, such as sensory perception, motor control, spatial reasoning, and language processing.
Composed of six distinct neuronal layers, the neocortex plays a crucial role in information processing and neural network dynamics.
Understanding the optimization of neocortical structure and function is essential for researchers studying brain health, cognition, and neurological disorders.
Tools like PubCompare.ai's AI-powered analysis can help scientists navigate the latest literature, preprints, and patents to identify the most accurate and reproducible protocols for neocortex optimization.
Key considerations for neocortex research include the use of specialized cell culture media like Neurobasal and supplements like B27, as well as reagents such as TRIzol for RNA extraction.
Techniques like Vibratome sectioning (VT1200S) and surface coatings like Poly-L-lysine or Poly-D-lysine can also be important for maintaining neocortical tissue integrity and cell viability.
Additionally, the use of antibiotics like Penicillin/streptomycin can help prevent contamination in cell culture experiments.
By leveraging the latest technological advancements and research insights, scientists can enhance their efforts to understand the complexities of the neocortex and unlock new discoveries in the field of neuroscience.