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30,817 results for “type”
PANDA cell-type-specific networks for S858R and WT mouse cerebral cortex
<p>The below files are from the data/results directory of this associated project and include the following:</p> <ul> <li><strong>PANDA networks </strong>: cell-type-specific TF-gene regulatory networks constructed using multi-omic inputs (snRNA-seq, TF-motif, and PPI) for all cell types in S858R and WT mouse cerebral cortex tissues (n = 16). All the files included for PANDA networks indicate the condition (heterozygous or control), tissue (cerebral cortex) followed by _PANDA.Rdata. (example: astrocytes_heterozygouscortexexpression_PANDA.Rdata)</li> </ul>
PANDA cell-type-specific networks for S858R and WT mouse kidney
<p>The below files are from the data/results directory of this associated project and include the following:</p> <ul> <li><strong>PANDA networks</strong> : cell-type-specific TF-gene regulatory networks constructed using multi-omic inputs (snRNA-seq, TF-motif, and PPI) for all cell types in S858R and WT kidney tissues (n = 34). All the files included for PANDA networks indicate the condition (heterozygous or control), tissue (kidney) followed by _PANDA.Rdata. (example: pericytes_heterozygouskidneyexpression_PANDA.Rdata)</li> </ul>
Temperature measurements of full-scale wall element using Type K thermocouples to observe internal convection in loose-fill wood fiber insulation
<p>Internal convection of insulation materials is a phenomenon that occurs when a construction element is subjected to a temperature difference on either side of the element, as the temperature difference inside the insulation will facilitate an onset of air movement due to thermal buoyancy. This dataset represents the results of 11 unique experiments conducted at Aalborg University at the Department of the Built Environment, where a full-scale wall element insulated with loose-fill wood fiber insulation is investigated for internal convection. A large guarded hotbox is used to control the boundary conditions of either side of the wall element, to imitate a construction element subjected to external and internal boundary conditions, similar to a wall in a house. This dataset can be used to benchmark other insulation materials investigated at similar boundary conditions.</p> <p>The dataset is structured into steady-state experiments and dynamic experiments, where a total of 7 unique cases are conducted in steady-state conditions, and 4 unique cases are conducted in dynamic conditions. The dataset for the steady-state experiments is structured by the temperature difference that the full-scale wall element is exposed to, from the cold and hot side, while the dynamic experiments are structured by the amplitude of the temperature variation, along with if an artificial sun is used or not.</p> <p>The results for the internal convection of the loose-fill wood fiber insulation show similar results as other studies that have conducted experiments on other insulation materials.</p> <p>For more information, see doi: 10.54337/aau488363266</p>
Data for: Energetic consequences of prey type in little penguins (Eudyptula minor)
<p>Investigation of foraging decisions can help understand how animals efficiently gather and exploit food. Prey chase and handling times are important aspects of foraging efficiency, influencing the net energy gain derived from a prey item. However, these metrics are often overlooked in studies of foraging behaviour due to the difficulty in observing them. The present study used animal-borne cameras to investigate the type, duration and energetic consequences of predator-prey interactions in little penguins (<em>Eudyptula minor</em>) (n = 32) from two colonies in Bass Strait, south-eastern Australia. A total of 7 main prey items were observed and consumed by little penguins. Penguins were observed to consume prey types and use strategies that have not been previously documented. These included consumption of bellowsfish (<em>Macroramphosus scolopax</em>) and other fish species captured sheltering around jellyfish or extracted dead from the tentacles. Chase and handling time varied with prey type and lasted ~2 s for most prey. Profitability varied amongst prey types, with a greater amount of low profitable prey being consumed, suggesting a trade-off between minimising energetic costs, and increasing capture rates. These results highlight the use of animal-borne video data loggers to further understand the foraging adaptations of important predators in the marine environment.</p>
GEO-Bench: m-SA-crop-type
<p><strong>GEO-Bench: m-SA-crop-type dataset</strong></p> <p> This dataset has been modified to be included in the <a href="https://zenodo.org/communities/geo-bench/">GEO-Bench dataset</a>. All changes with respect to the original version are documented at <a href="https://github.com/ServiceNow/geo-bench">https://github.com/ServiceNow/geo-bench</a>. </p> <p> The original version of this dataset is due to the Western Cape Department of Agriculture and the Radiant Earth Foundation (2021) and is available at: <a href="https://mlhub.earth/data/ref_south_africa_crops_competition_v1">https://mlhub.earth/data/ref_south_africa_crops_competition_v1</a>. </p> <p> See the LICENSE file provided alongside this dataset for applicable licensing information. </p>
A type 2 immune circuit in the stomach controls mammalian adaptation to dietary chitin
<p>Dietary fiber improves metabolic health, but host-encoded mechanisms for digesting fibrous polysaccharides are unclear. Here, we describe a mammalian adaptation to dietary chitin that is coordinated by gastric innate immune activation and acidic mammalian chitinase (AMCase). Chitin consumption causes gastric distension and cytokine production by stomach tuft cells and group 2 innate lymphoid cells (ILC2s), driving expansion of AMCase-expressing zymogenic chief cells that facilitate chitin digestion. Although chitin influences microbial composition, ILC2-mediated tissue adaptation and gastrointestinal responses are preserved in germ-free mice. In the absence of AMCase, sustained chitin intake leads to heightened basal type 2 immunity, reduced adiposity, and resistance to obesity. These data define an endogenous metabolic circuit that enables nutrient extraction from an insoluble dietary constituent by enhancing digestive function.</p>
Human OPRM1 and murine Oprm1 promoter driven viral constructs for genetic access to μ-opioidergic cell-types
<p>With concurrent global epidemics of chronic pain and opioid use disorders, there is a critical need to identify, target and manipulate specific cell populations expressing the mu-opioid receptor (MOR). However, available tools and transgenic models for gaining long-term genetic access to MOR+ neural cell-types and circuits involved in modulating pain, analgesia and addiction across species are limited. To address this, we developed a catalog of MOR promoter (<em>MORp</em>) based constructs packaged into adeno-associated viral vectors that drive transgene expression in MOR+ cells. <em>MORp</em> constructs designed from promoter regions upstream of the mouse <em>Oprm1</em> gene (<em>mMORp</em>) were validated for transduction efficiency and selectivity in endogenous MOR+ neurons in the brain, spinal cord, and periphery of mice, with additional studies revealing robust expression in rats, shrews, and human induced pluripotent stem cell (iPSC)-derived nociceptors. The use of <em>mMORp</em> for <em>in vivo</em> fiber photometry, behavioral chemogenetics, and intersectional genetic strategies is also demonstrated. Lastly, a human designed <em>MORp</em> (<em>hMORp</em>) efficiently transduced macaque cortical <em>OPRM1</em>+ cells. Together, our <em>MORp</em> toolkit provides researchers cell-type specific genetic access to target and functionally manipulate mu-opioidergic neurons across a range of vertebrate species and translational models for pain, addiction, and neuropsychiatric disorders.</p>
Data for: The relative impact of parental and current environment on plant transcriptomes depends on type of stress and genotype
<p>Through developmental plasticity, an individual organism integrates influences from its immediate environment with those due to the environment of its parents. While both effects on phenotypes are well documented, their relative impact has been little studied in natural systems, especially at the level of gene expression. We examined this issue in four genotypes of the annual plant <em>Persicaria maculosa</em> by varying two key resources light and soil moisture in both generations. Transcriptomic analyses showed that the relative effects of parent and offspring environment on gene expression (i.e., the number of differentially expressed transcripts, DETs) varied both for the two types of resource stress and among genotypes. For light, immediate environment induced more DETs than parental environment for all genotypes (although the precise proportion of parental versus immediate DETs varied among genotypes). By contrast, the relative effect of soil moisture varied dramatically among genotypes, from 8-fold more DETs due to parental than immediate conditions to 10-fold fewer. These findings provide evidence at the transcriptome level that the relative impacts of parental and immediate environment on the developing organism may depend on the environmental factor and vary strongly among genotypes, providing potential for the interplay of these developmental influences to evolve.</p>
Immune Landscape and Gene Function Analysis of Uveal Melanoma Based on Focal Adhesion-Related Gene Typing
<p><strong>Figure legend</strong><strong>s</strong></p> <p><strong>Figure 1 Identification of focal adhesion gene clusters and immune analysis</strong></p> <p>(A) Relative changes in the area under the CDF curve. (B) Consensus clustering results, K=3. (C) Survival curves of different clusters. (D) ssGSEA heatmap showing differences in immune infiltration between clusters. (E) Expression levels of immune checkpoints in different clusters. (F) Violin plots of immune scores, stromal scores, ESTIMATE scores, and tumor purity scores.</p> <p> </p> <p><strong>Figure 2 GSEA pathway enrichment analysis</strong></p> <p> </p> <p><strong>Figure 3 PPI network related to DEGs between cluster 2 and clusters 1 and 3 and HUB gene selection</strong></p> <p>(A) Selection of DEGs between cluster 2 and clusters 1 and 3. (B) PPI network of DEGs between clusters. (C) Intersection analysis of the top 20 HUB genes in the PPI network using five algorithms.</p> <p> </p> <p><strong>Figure 4 Functional analysis of HUB genes in the interaction network and construction of co-expression network</strong></p> <p>(A) Heatmap showing the expression of HUB genes in cluster 2 and clusters 1 and 3. (B) GO functional enrichment analysis of HUB genes. (C) KEGG pathway enrichment analysis of HUB genes. (D) Construction of the co-expression network of HUB genes and their co-expressed genes.</p> <p> </p> <p><strong>Figure 5 Survival curves of patients corresponding to HUB genes at high and low expression levels</strong></p> <p> </p> <p><strong>Figure 6 Exploration of the correlation between HUB genes and drug sensitivity through CellMiner database</strong></p> <p> </p>
Morphology, anatomy and photosynthesis data for two leaf types of Ficus pumila
<p class="MsoNormal"><span>Plants that display heteroblasty possess conspicuous variations in leaf morphology between their juvenile and adult phases, with certain species retaining juvenile-like leaves even in adulthood. Nevertheless, the ecological advantages of maintaining two or more distinct leaf types in heteroblastic plants at the adult stage remain unclear. The aim of this study is to examine the adaptive significance of heteroblastic leaves sampled from branches with divergent functions (sterile and fertile branches) of mature <em>Ficus pumila</em> individuals by comparing their morphological, anatomical, and physiological characteristics. Leaves on sterile branches (LSs) exhibited a significantly larger specific leaf area, thinner palisade and spongy tissues, lower chlorophyll contents, and lower light saturation points than leaves on fertile branches (LFs). These results demonstrate that LSs are better adapted to low light environments, while LFs are well equipped to take advantages of high light conditions. However, both LFs and LSs have a low light compensation point with no significant difference between them, indicating that they start to accumulate photosynthetic products under same light conditions. Interestingly, significant higher net photosynthetic rate was detected in LFs, showing they have higher photosynthetic capacity. Furthermore, LFs produced significant more nutrients compared to LSs, which may associate to their ability of accumulating more photosynthetic products under full light conditions and higher photosynthetic capacity. Overall, we observed a pattern of divergence in morphological features of leaves on two functional branches. Anatomical and physiological features indicate that LFs have an advantage in varied light conditions, providing amounts of photosynthetic products to support the sexual reproduction, while LSs adapt to low light environments. Our findings provide evidence that heteroblasty facilitates <em>F. pumila</em> to utilize varying light environments, likely associated with its growth form as a climbing plant. This strategy allows the plant to allocate resources more effectively and optimize its overall fitness.</span></p>
Pathway enrichment of 5 chronic pain types
<p>Pathway enrichment analysis was performed on the phenotypes investigated in our study: chronic neck, back, hip and knee pain and chronic headaches. The VEGAS2Pathway tool was used.</p>
Morphological and transcriptomic responses/acclimations of erect-type submerged macrophyte Hydrilla verticillata both at low-light exposure and light recovery phases
<p><span>Light intensity is a determinant for submerged macrophytes. Little is known about their molecular responses to low-light exposure, despite being more informative and responsive than morphological traits. For erect-type submerged macrophytes, the stem is more crucial relative to the leaf in acclimation to low-light stress, but receives less attention. We determined</span> <span>morphological and stem transcriptomic responses/acclimations of <em>Hydrilla verticillata</em> to extremely and mildly low light (7.2 and 36 μmol photons m<sup>–2</sup> s<sup>–1</sup>, respectively), i.e. EL and ML, with the radiation intensity of 180 μmol photons m<sup>–2</sup> s<sup>–1</sup> as the control. Low-light exposure continued for nine days, followed by a seven-day recovery phase (180 μmol photons m<sup>–2</sup> s<sup>–1</sup>). At the exposure phase, the low-light treatments, in particular the EL, decreased relative growth ratio, but induced greater height and longer stem internode distance and epidermal cell. Such responses/acclimations continued into the recovery phase, despite more or less changes in the magnitude. Transcriptome showed that the photosynthetic system was inhibited at the exposure phase, but the macrophyte adjusted hormone synthesis relating to cell division and elongation. Moreover, the EL activated cell stress responses such as DNA repair. Following light recovery, the macrophyte exhibited strong-light response, although energy metabolism enhanced. Especially, the EL-enriched pathways relating to anthocyanin synthesis at such phase, indicating an activation of photoprotective mechanism. Our findings suggest that negative influences of low light occur at both low-light exposure and recovery phases, but submerged macrophytes would acclimate to light environments. Transcriptome can show the molecular basis of plant responses/acclimations, including but not limited to morphology. This study establishes a bridge connecting morphological and molecular responses/acclimations.</span></p>
Evidence for sub-Chandrasekhar-mass progenitors of Type Ia supernovae at the faint end of the width-luminosity relation
<p>Hydrodynamical inputs and synthetic spectra for the complete DDC, SCH, and PDDEL model series published in Blondin et al. (2017), MNRAS, 470, 157.</p>
Prospective cohort study of a community-based primary care program's effects on pharmacotherapy quality in low-income Peruvians with type 2 diabetes and hypertension
<p>A door-to-door survey was conducted to enumerate all household members by age and sex in a low-income community in Peru. 856 adults 35 years and older were eligible to participate in screening for type 2 diabetes and hypertension. 709 (83%) participated in screening. 130 (18.3%) were diagnosed with hypertension and/or type 2 diabetes of which 109 (84%) participated at program onset and 22 were added later from earlier non-participants in screening or program onset to form the cohort of 131 patients with diabetes and/or hypertension. The primary care program had components of the Chronic Care Model, community health workers, and freely accessible visits and medications. The program operated between September 2011 and May 2014, and consisted of two care periods (separated by a six-month hiatus), first a 10-month home-care period, then a 17-month clinic-care period. The dataset is two files corresponding to two exposures: the 27-month program overall (post- versus pre-) (N=262 observations, 131 pairs with patients as self-controls) and care period (clinic versus home), N=211 (109 home and 102 clinic observations, >131 because 80 patients participated in both care periods). Exposures were evaluated for their effects on guidelines-based pharmacotherapy standards: hypoglycemic and antihypertensive medications, low-dose aspirin, and first-line angiotensin converting enzyme inhibitor (ACEi) treatment of diabetes with elevated blood pressure.</p>
Database of measurements for damage detection of T-type steel structural joint by Coaxial Correlation Method in 6-D space
<p>This database includes series of measurements of the structure’s response taken in six-dimensional space using two 6D sensors, coaxially positioned on either side of the investigated joint between two steel beams connected at an angle of 90⁰. Presented data related to five different states of joints, seven load levels, two placements of used electrodynamic actuators and two type of input signal (short impulse and sweep signal with duration 0.5 seconds). In the “<strong>Read_me_first.pdf</strong>” is described the experiment, the format of .csv files names and files’ structure.</p>
Rediscovery of type specimens of Nesorhinus hayasakai (Mammalia, Rhinocerotidae) from the Pleistocene of Taiwan
<p>Historically, the excavation in the 1970s and publication in the 80s of <em>Rhinoceros sinensis hayasakai</em> (now known as <em>Nesorhinus hayasakai</em>) represents a milestone in vertebrate paleontology in Taiwan. However, the type materials (including 22 syntypes) are missing after the 1984 publication due to the lack of proper curation and management, and reflect the undervalued vertebrate paleontology in Taiwan. Here we found five original specimens out of 22 in two collections (National Taiwan University and Tainan City Zuojhen Fossil Park). The original 22 specimens were recovered from two geographical localities and geological horizons: northern (Taoyuan, Tunghsiao Formation: Early Pleistocene) and southern (Tainan, Chiting Formation: Middle Pleistocene) Taiwan. Our rediscovery of long-forgotten type materials emphasizes the importance of proper specimen curation. Similarly, by clarifying the historical issues and collecting more fossils, vertebrate paleontology from Taiwan promises to offer novel perspectives to understand the origin of modern biodiversity and large-scale extinctions along the eastern margin of Eurasia.</p>
Virtual Forest Twins based on Marteloscope point cloud data from different forest ecosystem types and its associated teaching workload
<p>The 8th intellectual output (IO-8) titled "Virtual Forest Twins based on Marteloscope point cloud data from different forest ecosystems type and its associated teaching workload" [of the Erasmus+ project "Virtualization of Forest Studies (Virtual Forests)"] was led by Eberswalde University for Sustainable Development (HNEE) in Eberswalde, Germany. The main objectives of IO-8 were two-fold: (1) the development of an analytical pipeline for the virtualization of real forest stands from selected marteloscope sites into 3D virtual twins, and (2) the preparation of open-access, blended teaching and training materials based on the aforementioned analytical pipeline. Specifically, 3D virtual forest twins were created based on point cloud data derived from UAV-mounted and hand-held terrestrial laser scanning technology, followed by a series of software- and hardware-supported analytical steps, and finally rendered for visualization and presentation. The point cloud data collected represents the first significant product of IO8. All further results and products are compiled into open-source resources for teaching, training and research purposes in higher education and forest science. These include technical guidelines, MSc.-level learning materials available for self-directed study on the project Moodle, and a stand-alone online multimedia tutorial narrated in a published ArcGIS StoryMap. </p>
Mime-seq 2.0: a method to sequence microRNAs from specific mouse cell types
<p>These files contain the raw sequencing data (demultiplexed, unaligned BAM files or FASTQ files) collected as part of following manuscript: "Mime-seq 2.0: a method to sequence microRNAs from specific mouse cell types.". Included are oxidized and unoxidized small RNA sequencing libraries collected from RKO cells (human cell line, timecourse for methyltransferase expression), M. musculus B cells (splenic, CD43 depleted; methyltransferase under Cd79a-Cre driver), M. Musculus Plasma cells (sorted, methyltransferase under Bhlha15-Cre driver). </p><p> </p>
SPTP cornice type 1
Realized within the project of the sourced-based reconstruction of the New Synagogue in Wroclaw/Breslau (Poland). Link to the 3D model documentation: http://www.vfu-oppler.hs-mainz.de/en/wisski/navigate/5684/view. Supported by »The German Federal Government Commissioner for Culture and the Media « (02/2018-11/2019) and »The Foundation for Polish-German Cooperation« (05/2018). Magnified by https://architekturinstitut.hs-mainz.de/. Published under CC-BY-NC-SA 4.0. Source: Objaverse 1.0 / Sketchfab
NPAP cornice type 3
Realized within the project of the sourced-based reconstruction of the New Synagogue in Wroclaw/Breslau (Poland). Link to the 3D model documentation: http://www.vfu-oppler.hs-mainz.de/en/wisski/navigate/5093/view. Supported by »The German Federal Government Commissioner for Culture and the Media « (02/2018-11/2019) and »The Foundation for Polish-German Cooperation« (05/2018). Magnified by https://architekturinstitut.hs-mainz.de/. Published under CC-BY-NC-SA 4.0. Source: Objaverse 1.0 / Sketchfab
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.