Gene co-expression provides crucial insights into biological functions, however, there is a lack of exploratory analysis tools for localized gene co-expression in large-scale datasets. We present GeneSurfer, an intera...
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Gene co-expression provides crucial insights into biological functions, however, there is a lack of exploratory analysis tools for localized gene co-expression in large-scale datasets. We present GeneSurfer, an interactive interface designed to explore localized transcriptome-wide gene co-expression patterns in the 3D spatial domain. Key features of GeneSurfer include transcriptome-wide gene filtering and gene clustering based on spatial local co-expression within transcriptomically similar cells, multi-slice 3D rendering of average expression of gene clusters, and on-the-fly Gene Ontology term annotation of co-expressed gene sets. Additionally, GeneSurfer offers multiple linked views for investigating individual genes or gene co-expression in the spatial domain at each exploration stage. Demonstrating its utility with both spatially resolved transcriptomics and single-cell RNA sequencing data from the Allen Brain Cell Atlas, GeneSurfer effectively identifies and annotates localized transcriptome-wide co-expression, providing biological insights and facilitating hypothesis generation and validation.
Quality assessment of different Magnetic Resonance Fingerprinting (MRF) sequences and their corresponding dictionaries remains an unsolved problem. In this work we present a method in which we approach analysis of MRF...
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Diffusion Tensor Imaging (DTI) group studies often require the comparison of two groups of 3D diffusion tensor fields. The total number of datasets involved in the study and the multivariate nature of diffusion tensor...
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Gamification is the use of game elements in a non-gaming environments. The aims of implementing game elements in gamifying educational environment is to make the learners engaged and motivated in the learning process....
Gamification is the use of game elements in a non-gaming environments. The aims of implementing game elements in gamifying educational environment is to make the learners engaged and motivated in the learning process. But, some of the research result giving bad impacts in implementing gamification in education. The objective of this research is to study the impact of implementing game elements in education. The aim of this research is to study which game elements is most commonly used in gamifying educational environment. The study is done by reviewing previous research on impacts of implementing game element in education from 2008 until 2018 to see whether the elements giving positive or negative impacts on education. The results shows the most common game elements used in gamification is rewards, feedback, challenge, quest/mission/goal, level/stage, point/score, avatars/players, task, character, time-limit, narrative/dialogue, leaderboards, progress bars, and badges. Majority of the research on gamification in education reports positive impacts by introducing gamification in education. In conclusion, by implementing game elements in the gamifying educational environment is a good method to create a good adjustment in learners' behavior and assertiveness in the learning process, it can develop engagement and motivation of the learners'.
Astrophysics lies at the crossroads of big datasets (such as the Large Synoptic Survey Telescope and Gaia), open source software to visualize and interpret high dimensional datasets (such as Glue, WorldWide Telescope,...
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ABSTRACTIntroductionImmune checkpoint blockade has revolutionised cancer treatment. However, clinical outcomes are highly variable as only a proportion of cancer patients benefit from this treatment. To understand the...
ABSTRACTIntroductionImmune checkpoint blockade has revolutionised cancer treatment. However, clinical outcomes are highly variable as only a proportion of cancer patients benefit from this treatment. To understand the mechanisms that determine responses to current immunotherapies and for the design of alternative approaches, it is crucial to characterise the immune landscape of the tumour microenvironment. An in-depth understanding of anti-tumour immunity requires a comprehensive analysis of the immune cell populations that participate in the process of tumorigenesis. The aim of this study is to unravel local and systemic profiles of lymphoid and myeloid immune subsets in colorectal cancer (CRC) using high-dimensional immunophenotyping by mass cytometry. Material and methodsThe expression of 36 immune cell markers was simultaneously assessed at the single-cell level by mass cytometry in tumour tissues (n=19), tumor-associated lymph nodes (n=17), adjacent normal mucosa (n=4), and peripheral blood samples (n=9) derived from 18 CRC patients. In total, 9 million cells were included in the analysis. Cytosplore and HSNE (Hierarchical Stochastic Neighbour Embedding) analysis tools were used to identify and visualise the composition of the lymphoid and myeloid cell populations of the innate and adaptive immune compartments in the tissues. Results and discussionsWe identified 220 immune cell subsets, including tumor-resident CD8 +CD45RO +CD103 +PD-1 +, CD4 +CD45RO +CD103 +PD-1 + and CD4 +CD45RO +ICOS +CD27 - T cell populations that were not found in tumor-associated lymph nodes, adjacent normal mucosa, and peripheral blood samples of CRC patients. In addition, we identified an overrepresentation of CD3 -CD7 +CD56 +CD45RO +CD127 - intermediate innate lymphoid cells in mismatch-repair deficient cancers and an enrichment of CD14 - myeloid populations in mismatch-repair proficient cancers. Unsupervised clustering of the samples based on the composite immune profile separated the
Structural properties of molecules are of primary concern in many fields. This report provides a comprehensive overview on techniques that have been developed in the fields of molecular graphics and visualization with...
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Scene graph is a infrastructure of the virtual reality system to organize the virtual scene with abstraction, it can provide facility for the rendering engine and should be integrated effectively on demand into a real...
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Scene graph is a infrastructure of the virtual reality system to organize the virtual scene with abstraction, it can provide facility for the rendering engine and should be integrated effectively on demand into a real-time system, where a large quantities of scene objects and resources can be manipulated and managed with high flexibility and reliability. We present a new scheme of multiple scene graphs to accommodate the features of rendering engine and distributed systems. Based upon that, some other functions, e.g. block query, interactive editing, permission management, instance response, ＂redo＂ and ＂undo＂, are implemented to satisfy various requirements. At the same time, our design has compatibility to popular C/S architecture with good concurrent performance. Above all, it is convenient to be used for further development. The results of experiments including responding time demonstrate its good performance.
Natural disasters can cause huge loss of life, enormous amounts of property damage to the local communities. Although it is impossible to avoid the natural disasters, human sufferings can be reduced by adopting inform...
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