Browse
Submit Data
Databases
API
Help

Dataset Information

21 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Reference Charts for Neonatal Cranial Volume Based on 3D Laser Scanning to Monitor Head Growth.

ABSTRACT: Background: Postnatal brain growth is an important predictor of neurodevelopmental outcome in preterm infants. A new reliable proxy for brain volume is cranial volume, which can be measured routinely by 3-D laser scanning. The aim of this study was to develop reference charts for normal cranial volume in newborn infants at different gestational ages starting from late preterm for both sexes. Methods: Cross-sectional cohort study in a German university hospital, including singleton, clinically stable, neonates born after 34 weeks of gestation. Cranial volume was measured in the first week of life by a validated 3-D laser scanner. Cranial volume data was modeled to calculate percentile values by gestational age and birth weight and to develop cranial volume reference charts for girls and boys separately. Results: Of the 1,703 included infants, 846 (50%) were female. Birth weights ranged from 1,370 to 4,830 grams (median 3,370). Median cranial volume ranged from 320 [interquartile range (IQR) 294-347] ml at 34 weeks to 469 [IQR 442-496] ml at 42 weeks and was higher in boys than in girls. Conclusions: This study presents the first reference charts of cranial volume which can be used in clinical practice to monitor brain growth between 34 and 42 weeks gestation in infants.

SUBMITTER: Vermeulen MJ

PROVIDER: S-EPMC8192695 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

Novel application of confocal laser scanning microscopy and 3D volume rendering toward improving the resolution of the fossil record of charcoal.

Project description:Variations in the abundance of fossil charcoals between rocks and sediments are assumed to reflect changes in fire activity in Earth's past. These variations in fire activity are often considered to be in response to environmental, ecological or climatic changes. The role that fire plays in feedbacks to such changes is becoming increasingly important to understand and highlights the need to create robust estimates of variations in fossil charcoal abundance. The majority of charcoal based fire reconstructions quantify the abundance of charcoal particles and do not consider the changes in the morphology of the individual particles that may have occurred due to fragmentation as part of their transport history. We have developed a novel application of confocal laser scanning microscopy coupled to image processing that enables the 3-dimensional reconstruction of individual charcoal particles. This method is able to measure the volume of both microfossil and mesofossil charcoal particles and allows the abundance of charcoal in a sample to be expressed as total volume of charcoal. The method further measures particle surface area and shape allowing both relationships between different size and shape metrics to be analysed and full consideration of variations in particle size and size sorting between different samples to be studied. We believe application of this new imaging approach could allow significant improvement in our ability to estimate variations in past fire activity using fossil charcoals.

| S-EPMC3744490 | biostudies-literature

Normative volume measurements of the fetal intra-cranial compartments using 3D volume in utero MR imaging.

Project description:PURPOSE:To describe the normal linear measurements of the skull (bi-parietal diameter and occipito-frontal diameter) and intracranial volumes (ventricular volume, brain parenchymal volume, extra-axial volume and total intra-cranial volume) in normal fetuses. MATERIALS AND METHODS:We recruited pregnant women from low-risk pregnancies whose fetuses had normal ultrasound and in utero MR studies. All volunteers had in utero MR imaging on the same 1.5T MR scanner with a protocol consisting of routine and 3D steady-state volume imaging of the fetal brain. Linear measurements of the skull were made using the volume imaging. The 3D volume imaging also was manually segmented to delineate the intracranial compartments described above to determine quantitative values for each. RESULTS:Two hundred normal fetuses were studied with gestational ages between 18 and 37 weeks. The linear skull measurements made on in utero MR imaging closely correlate with published data from ultrasonography. The intracranial volume data is presented as graphs and as tabular summaries of 3rd, 10th, 50th, 90th and 97th centiles. CONCLUSION:It is now possible to measure the volumes of the intracranial compartments in individual fetuses using ultrafast in utero MR techniques. KEY POINTS:• There are limitations in using the skull size of the fetus to comment on the state of the fetal brain. • Volumes for the intracranial compartments are presented, based on in utero MR imaging of the fetal brain between 18 and 37 weeks gestational age. • Those normative values can be used to assess fetuses with known or suspected structural brain abnormalities and may assist the differential diagnosis provided by visual assessment of routine iuMR studies.

| S-EPMC6554253 | biostudies-literature

Predicting Tree Species From 3D Laser Scanning Point Clouds Using Deep Learning.

Project description:Automated species classification from 3D point clouds is still a challenge. It is, however, an important task for laser scanning-based forest inventory, ecosystem models, and to support forest management. Here, we tested the performance of an image classification approach based on convolutional neural networks (CNNs) with the aim to classify 3D point clouds of seven tree species based on 2D representation in a computationally efficient way. We were particularly interested in how the approach would perform with artificially increased training data size based on image augmentation techniques. Our approach yielded a high classification accuracy (86%) and the confusion matrix revealed that despite rather small sample sizes of the training data for some tree species, classification accuracy was high. We could partly relate this to the successful application of the image augmentation technique, improving our result by 6% in total and 13, 14, and 24% for ash, oak and pine, respectively. The introduced approach is hence not only applicable to small-sized datasets, it is also computationally effective since it relies on 2D instead of 3D data to be processed in the CNN. Our approach was faster and more accurate when compared to the point cloud-based "PointNet" approach.

| S-EPMC7902704 | biostudies-literature

Base editor scanning charts the DNMT3A activity landscape.

Project description:DNA methylation is critical for regulating gene expression, necessitating its accurate placement by enzymes such as the DNA methyltransferase DNMT3A. Dysregulation of this process is known to cause aberrant development and oncogenesis, yet how DNMT3A is regulated holistically by its three domains remains challenging to study. Here, we integrate base editing with a DNA methylation reporter to perform in situ mutational scanning of DNMT3A in cells. We identify mutations throughout the protein that perturb function, including ones at an interdomain interface that block allosteric activation. Unexpectedly, we also find mutations in the PWWP domain, a histone reader, that modulate enzyme activity despite preserving histone recognition and protein stability. These effects arise from altered PWWP domain DNA affinity, which we show is a noncanonical function required for full activity in cells. Our findings highlight mechanisms of interdomain crosstalk and demonstrate a generalizable strategy to probe sequence-activity relationships of nonessential chromatin regulators.

| S-EPMC10518564 | biostudies-literature

Performance of the three-dimensional laser scanning method to monitor the moisture content of similar material models.

Project description:In mining safety and other fields, similar material simulation is the main research method to study the movement and deformation of rock formation and ground surface. However, the inaccurate subsidence laws could be obtained because the strength of the composition materials like gypsum and lime is easily affected by moisture. Therefore, it is crucial to monitor the moisture content when carrying simulation experiments. This paper discussed the feasibility of indirectly measuring the moisture content of similar material models using the three-dimensional (3D) laser scanning reflection intensity through three experiments on similar material specimens. The results showed that the laser reflection intensity was sensitive to the moisture content, incidence angle, and distance with three different relationships and the influence of the two factors could be weakened through the established correction models. However, it was recommended restricting the incidence angle to less than 20° and setting the distance from 4 to 10 m to reduce the complexity of correction. The accuracy of this method reached 1.1% under the monitoring condition of 4 m and the normal incidence, which could meet the requirements for monitoring the moisture content of similar material models. The research results of the paper provide a new method to monitor the moisture content in similar material models.

| S-EPMC9402562 | biostudies-literature

Head circumference from birth to five years in France: New national reference charts and comparison to WHO standards.

Project description:BackgroundThe monitoring of head circumference (HC) is essential to early detect any conditions affecting its growth in early childhood. A positive secular trend and regional specificities in HC suggested the need to provide updated national HC reference growth charts.MethodsWe extracted all growth data collected from 42 primary-care physicians from across the French metropolitan territory who used the same electronic medical-records software. We selected HC measurements up to age five years for all children who were born after 1990 with birth weight > 2500 g. We derived new HC growth charts by using Generalized Additive Models for Location, Scale and Shape, then externally validated them until 30 months of age by comparison with the national population-based Étude Longitudinale Française depuis l'Enfance (ELFE) birth cohort and compared them to previous French and WHO growth charts.FindingsWith 973,869 HC measurements from 157,762 children, new calibrated HC growth charts from birth to age five years were generated. The new HC growth charts showed good external fit by comparison with the ELFE birth cohort. As compared with the new HC growth charts, the previous French and WHO growth charts mean HC z-scores were, respectively, -0.4 and -0.6 SD for girls and -0.2 and -0.6 SD for boys.InterpretationWe produced and validated national calibrated HC growth charts by using a novel big-data approach applied to data routinely collected in clinical practice. Comparison with previous French and WHO growth charts confirmed a positive secular trend since the 1960s and regional specificities.FundingThe French Ministry of Health; Laboratoires Guigoz-General Pediatrics section of the French Society of Pediatrics-Paediatric Epidemiological Research Group; the French Association of Ambulatory Pediatrics; and educational grant from the Regional Health Agency of Ile-de-France.

| S-EPMC8454714 | biostudies-literature

Fast 3D visualization of endogenous brain signals with high-sensitivity laser scanning photothermal microscopy.

Project description:A fast, high-sensitivity photothermal microscope was developed by implementing a spatially segmented balanced detection scheme into a laser scanning microscope. We confirmed a 4.9 times improvement in signal-to-noise ratio in the spatially segmented balanced detection compared with that of conventional detection. The system demonstrated simultaneous bi-modal photothermal and confocal fluorescence imaging of transgenic mouse brain tissue with a pixel dwell time of 20 ?s. The fluorescence image visualized neurons expressing yellow fluorescence proteins, while the photothermal signal detected endogenous chromophores in the mouse brain, allowing 3D visualization of the distribution of various features such as blood cells and fine structures probably due to lipids. This imaging modality was constructed using compact and cost-effective laser diodes, and will thus be widely useful in the life and medical sciences.

| S-EPMC4871075 | biostudies-literature

Structural integrity of aging steel bridges by 3D laser scanning and convolutional neural networks.

Project description:For steel bridges, corrosion has historically led to bridge failures, resulting in fatalities and injuries. To enhance public safety and prevent such incidents, authorities mandate in-situ evaluation and reporting of corroded members. The current inspection and evaluation protocol is characterized by intense labor, traffic delays, and poor capacity predictions. Here we combine full-scale experimental testing of a decommissioned girder, 3D laser scanning, and convolutional neural networks (CNNs) to introduce a continuous inspection and evaluation framework. Classification and regression CNNs are trained on a databank of 1,421 naturally inspired corrosion scenarios, generated computationally based on point clouds of three corroded girders collected in lab conditions. Results indicate low errors of up to 2.0% and 3.3%, respectively. The methodology is validated on eight real corroded ends and implemented for the evaluation of an in-service bridge. This framework promises significant advancements in assessing aging bridge infrastructure with higher accuracy and efficiency compared to analytical or semi-analytical approaches.

| S-EPMC11294330 | biostudies-literature

Remote z-scanning with a macroscopic voice coil motor for fast 3D multiphoton laser scanning microscopy.

Project description:There is a high demand for 3D multiphoton imaging in neuroscience and other fields but scanning in axial direction presents technical challenges. We developed a focusing technique based on a remote movable mirror that is conjugate to the specimen plane and translated by a voice coil motor. We constructed cost-effective z-scanning modules from off-the-shelf components that can be mounted onto standard multiphoton laser scanning microscopes to extend scan patterns from 2D to 3D. Systems were designed for large objectives and provide high resolution, high speed and a large z-scan range (>300 μm). We used these systems for 3D multiphoton calcium imaging in the adult zebrafish brain and measured odor-evoked activity patterns across >1500 neurons with single-neuron resolution and high signal-to-noise ratio.

| S-EPMC4871072 | biostudies-other

A Long-Term Terrestrial Laser Scanning Measurement Station to Continuously Monitor Structural and Phenological Dynamics of Boreal Forest Canopy.

Project description:The terrestrial laser scanner (TLS) has become standard technology for vegetation dynamics monitoring. TLS time series have significant underlying application in investigating structural development and dynamics on a daily and seasonal scale. However, the high potential of TLS for the monitoring of long-term temporal phenomena in fully grown trees with high spatial and temporal resolution has not yet been fully explored. Automated TLS platforms for long-term data collection and monitoring of forest dynamics are rare; and long-term TLS time series data is not yet readily available to potential end-user, such as forestry researchers and plant biologists. This work presents an automated and permanent TLS measurement station that collects high frequency and high spatial resolution TLS time series, aiming to monitor short- and long-term phenological changes at a boreal forestry field station (0.006° angular resolution, one scan per hour). The measurement station is the first of its kind considering the scope, accuracy, and length of the time series it produces. The TLS measurement station provides a unique dataset to monitor the 3D physical structure of a boreal forest, enabling new insights into forest dynamics. For instance, the information collected by the TLS station can be used to accurately detect structural changes in tree crowns surrounding the station. These changes and their timing can be linked with the phenological state of plants, such as the start of leaf-out during spring growing season. As the first results of this novel station, we present time series data products collected with the station and what detailed information it provides about the phenological changes in the test site during the leaf sprout in spring.

| S-EPMC7817955 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data