EMBOJ-2024-117209_File list Figure 1G
Ontology highlight
ABSTRACT:
ORGANISM(S): Danio rerio (zebrafish) ze
SUBMITTER:
PROVIDER: S-BSST1414 | biostudies-other |
REPOSITORIES: biostudies-other
Similar Datasets
Project description: Not available
| S-BSST1415 | biostudies-other
Project description: Not available
| S-BSST1139 | biostudies-other
Project description: Not available
| S-BSST1811 | biostudies-other
Project description:Figure-ground (FG) segregation that separates an object from the rest of the image is a fundamental problem in vision science. A majority of neurons in monkey V2 showed the selectivity to border ownership (BO) that indicates which side of a contour owns the border. Although BO could be a precursor of FG segregation, the contribution of BO to FG segregation has not been clarified. Because FG segregation is the perception of the global region that belongs to an object, whereas BO determination provides the local direction of figure (DOF) along a contour, a spatial integration of BO might be expected for the generation of FG. To understand the mechanisms underlying the perception of figural regions, we investigated the interaction between the local BO determination and the global FG segregation through the quantitative analysis of the visual perception and the spatiotemporal characteristics of eye movements. We generated a set of novel stimuli in which translucency induces local DOF along the contour and global FG independently so that DOF and FG could be either consistent or contradictory. The perceptual responses showed better performance in DOF discrimination than FG segregation, supporting distinct mechanisms for the DOF discrimination and the FG segregation. We examined whether the contradiction between DOF and FG modulates the eye movement while participants judged DOF and FG. The duration of the first eye fixation was modulated by the contradiction during FG segregation but not DOF discrimination, suggesting a sequential processing from the BO determination to the FG segregation. These results of human perception and eye fixation provide important clues for understanding the visual processing for FG segregation.
| S-EPMC6135913 | biostudies-literature
Project description:It is tempting to believe that we now own the genome. The ability to read and rewrite it at will has ushered in a stunning period in the history of science. Nonetheless, there is an Achilles' heel exposed by all of the genomic data that has accrued: We still do not know how to interpret them. Many genes are subject to sophisticated programs of transcriptional regulation, mediated by DNA sequences that harbor binding sites for transcription factors, which can up- or down-regulate gene expression depending upon environmental conditions. This gives rise to an input-output function describing how the level of expression depends upon the parameters of the regulated gene-for instance, on the number and type of binding sites in its regulatory sequence. In recent years, the ability to make precision measurements of expression, coupled with the ability to make increasingly sophisticated theoretical predictions, has enabled an explicit dialogue between theory and experiment that holds the promise of covering this genomic Achilles' heel. The goal is to reach a predictive understanding of transcriptional regulation that makes it possible to calculate gene expression levels from DNA regulatory sequence. This review focuses on the canonical simple repression motif to ask how well the models that have been used to characterize it actually work. We consider a hierarchy of increasingly sophisticated experiments in which the minimal parameter set learned at one level is applied to make quantitative predictions at the next. We show that these careful quantitative dissections provide a template for a predictive understanding of the many more complex regulatory arrangements found across all domains of life.
| S-EPMC7001876 | biostudies-literature
Project description:Since its original conception as a tool for manufacturing porous materials, the breath figure method (BF) and its variations have been frequently used for the fabrication of numerous micro- and nanopatterned functional surfaces. In classical BF, reliable design of the final pattern has been hindered by the dual role of solvent evaporation to initiate/control the dropwise condensation and induce polymerization, alongside the complex effects of local humidity and temperature influence. Herein, we provide a deterministic method for reliable control of BF pore diameters over a wide range of length scales and environmental conditions. To this end, we employ an adapted methodology that decouples cooling from polymerization by using a combination of initiative cooling and quasi-instantaneous UV curing to deliberately arrest the desired BF patterns in time. Through in situ real-time optical microscopy analysis of the condensation kinetics, we demonstrate that an analytically predictable self-similar regime is the predominant arrangement from early to late times O(10-100 s), when high-density condensation nucleation is initially achieved on the polymer films. In this regime, the temporal growth of condensation droplets follows a unified power law of D ∝ t. Identification and quantitative characterization of the scale-invariant self-similar BF regime allow fabrication of programmed pore size, ranging from hundreds of nanometers to tens of micrometers, at high surface coverage of around 40%. Finally, we show that temporal arresting of BF patterns can be further extended for selective surface patterning and/or pore size modulation by spatially masking the UV curing illumination source. Our findings bridge the gap between fundamental knowledge of dropwise condensation and applied breath figure patterning techniques, thus enabling mechanistic design and fabrication of porous materials and interfaces.
| S-EPMC9204694 | biostudies-literature
Project description:We propose an instructive figure that summarized the classification of epilepsy syndromes according to the 2022 report of the ILAE Task Force on Nosology and Definitions. Our aim is to present on the same figure different concepts such as the names of epilepsy syndromes, their extreme and classical ages of onset, their epilepsy types (generalized, focal, or generalized and focal) but also their membership in groups of epilepsy syndromes as for self-limited or developmental and epileptic encephalopathies. With this figure, we provide an interactive tool, as supplementary data, helping to present this classification and link it to electro-clinical mandatory, alerts, and exclusionary criteria of each syndrome, in accordance with the ILAE position papers on syndromes classification and nosology. This report may be used as an illustrative tool for teaching epilepsy syndromes and as a practical and comprehensive aid for the classification of epilepsy individuals' syndromes.
| S-EPMC9978057 | biostudies-literature
Project description:GenBank® (https://www.ncbi.nlm.nih.gov/genbank/) is a comprehensive, public database that contains 25 trillion base pairs from over 3.7 billion nucleotide sequences for 557 000 formally described species. Daily data exchange with the European Nucleotide Archive (ENA) and the DNA Data Bank of Japan (DDBJ) ensures worldwide coverage. Recent updates include policies for including spatio-temporal metadata, clarified documentation for GenBank data processing, enhanced foreign contamination screening tools, new processes in the Submission Portal, migration of Entrez Genome and Assembly displays into NCBI Datasets, and the impending retirement of tbl2asn, replaced by table2asn.
| S-EPMC10767886 | biostudies-literature
Project description:Biomedical literature incorporates millions of figures, which are a rich and important knowledge resource for biomedical researchers. Scientists need access to the figures and the knowledge they represent in order to validate research findings and to generate new hypotheses. By themselves, these figures are nearly always incomprehensible to both humans and machines and their associated texts are therefore essential for full comprehension. The associated text of a figure, however, is scattered throughout its full-text article and contains redundant information content. In this paper, we report the continued development and evaluation of several figure summarization systems, the FigSum+ systems, that automatically identify associated texts, remove redundant information, and generate a text summary for every figure in an article. Using a set of 94 annotated figures selected from 19 different journals, we conducted an intrinsic evaluation of FigSum+. We evaluate the performance by precision, recall, F1, and ROUGE scores. The best FigSum+ system is based on an unsupervised method, achieving F1 score of 0.66 and ROUGE-1 score of 0.97. The annotated data is available at figshare.com (http://figshare.com/articles/Figure_Associated_Text_Summarization_and_Evaluation/858903).
| S-EPMC4313946 | biostudies-literature
Project description:Werner syndrome (WS) is an autosomal recessive progeroid disorder caused by mutations in the WRN gene (WRN). Most Japanese WS patients are born from a consanguineous marriage with homozygous WRN mutations. We herein report a rare WS patient born from non-consanguineous parents with compound heterozygous WRN mutations with a novel heterogeneous c.1720+1G>A substitution plus the most frequent heterogeneous c.3139-1G>C substitution among Japanese. Although the present case showed clinical characteristics common to previous Japanese WS patients, he had not developed any malignant tumors as of 43 years of age, suggesting that WS patients with this particular genetic mutation have a different phenotype than others.
| S-EPMC6478977 | biostudies-literature