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30,817 results for “type”
Cell type matching across species using protein embeddings and transfer learning
<p>TACTiCS is a method to transfer and align cell types in cross-species data. This repository contains the protein sequences, protein embeddings, count matrices and trained models for human, mouse and marmoset.</p>
Categorisation of monogenic disorders: Underlying a deficit of type I IFN activity / observed type I IFN signalling upregulation
<div>The last 20 years have seen the definition of human monogenic disorders and their autoimmune phenocopies underlying either defective or enhanced type I interferon (IFN) activity. These disorders delineate the impact of type I IFNs in natural conditions. Remarkably, only a narrow window of type I IFN activity is beneficial. Insufficient type I IFN predisposes humans to life-threatening viral diseases, albeit surprisingly few, with a central role in immunity to respiratory and cerebral viral infection. Excessive type I IFN, perhaps unexpectedly, appears to underlie a greater number of autoinflammatory and/or autoimmune conditions known as type I interferonopathies, whose study has revealed multiple molecular programs involved in the induction of type I IFN signaling. These observations suggest the manipulation of type I IFN activity to within a physiological range may be clinically relevant for the prevention and treatment of viral and inflammatory disease.</div>
Fig. 12. Doliops villalobosi Heller, 1926 in Type specimens of the genera Doliops Waterhouse, 1841 and Lamprobityle Heller, 1923 (stat. nov.) (Coleoptera: Cerambycidae) and description of two new species deposited in Senckenberg Natural History collections Dresden, Germany
Fig. 12. Doliops villalobosi Heller, 1926 (A – dorsal view, B – lateral view, C – labels)
Fig. 10. Doliops pachyrrhynchoides Heller, 1916 in Type specimens of the genera Doliops Waterhouse, 1841 and Lamprobityle Heller, 1923 (stat. nov.) (Coleoptera: Cerambycidae) and description of two new species deposited in Senckenberg Natural History collections Dresden, Germany
Fig. 10. Doliops pachyrrhynchoides Heller, 1916 (A – dorsal view, B – lateral view, C – labels)
Fig. 9. Doliops multifasciata Schultze, 1922 in Type specimens of the genera Doliops Waterhouse, 1841 and Lamprobityle Heller, 1923 (stat. nov.) (Coleoptera: Cerambycidae) and description of two new species deposited in Senckenberg Natural History collections Dresden, Germany
Fig. 9. Doliops multifasciata Schultze, 1922 (A – dorsal view, B – lateral view, C – labels)
Fig. 6. Doliops frosti Schultze, 1923 in Type specimens of the genera Doliops Waterhouse, 1841 and Lamprobityle Heller, 1923 (stat. nov.) (Coleoptera: Cerambycidae) and description of two new species deposited in Senckenberg Natural History collections Dresden, Germany
Fig. 6. Doliops frosti Schultze, 1923 (A – dorsal view, B – lateral view, C – labels)
Fig. 5. Doliops duodecimpunctata Heller, 1923 in Type specimens of the genera Doliops Waterhouse, 1841 and Lamprobityle Heller, 1923 (stat. nov.) (Coleoptera: Cerambycidae) and description of two new species deposited in Senckenberg Natural History collections Dresden, Germany
Fig. 5. Doliops duodecimpunctata Heller, 1923 (A – dorsal view, B – lateral view, C – labels)
Fig. 7. Doliops imitator Schultze, 1918 in Type specimens of the genera Doliops Waterhouse, 1841 and Lamprobityle Heller, 1923 (stat. nov.) (Coleoptera: Cerambycidae) and description of two new species deposited in Senckenberg Natural History collections Dresden, Germany
Fig. 7. Doliops imitator Schultze, 1918 (A – dorsal view, B – lateral view, C – labels)
Fig. 2 in Type specimens of the genera Doliops Waterhouse, 1841 and Lamprobityle Heller, 1923 (stat. nov.) (Coleoptera: Cerambycidae) and description of two new species deposited in Senckenberg Natural History collections Dresden, Germany
Fig. 2. Lamprobityle mindanaoense spec. nov. (A – dorsal view, B – lateral view, C – labels)
Fig. 1 in Type specimens of the genera Doliops Waterhouse, 1841 and Lamprobityle Heller, 1923 (stat. nov.) (Coleoptera: Cerambycidae) and description of two new species deposited in Senckenberg Natural History collections Dresden, Germany
Fig. 1. Doliops schultzei sp. nov. (A – dorsal view, B – lateral view, C – labels)
Fig. 11. Doliops siargaoensis Schultze, 1919 in Type specimens of the genera Doliops Waterhouse, 1841 and Lamprobityle Heller, 1923 (stat. nov.) (Coleoptera: Cerambycidae) and description of two new species deposited in Senckenberg Natural History collections Dresden, Germany
Fig. 11. Doliops siargaoensis Schultze, 1919 (A – dorsal view, B – lateral view, C – labels)
Fig. 4. Doliops basilana Heller, 1924 in Type specimens of the genera Doliops Waterhouse, 1841 and Lamprobityle Heller, 1923 (stat. nov.) (Coleoptera: Cerambycidae) and description of two new species deposited in Senckenberg Natural History collections Dresden, Germany
Fig. 4. Doliops basilana Heller, 1924 (A – dorsal view, B – lateral view, C – labels)
Fig. 8. Doliops metallica Breuning, 1938 in Type specimens of the genera Doliops Waterhouse, 1841 and Lamprobityle Heller, 1923 (stat. nov.) (Coleoptera: Cerambycidae) and description of two new species deposited in Senckenberg Natural History collections Dresden, Germany
Fig. 8. Doliops metallica Breuning, 1938 (A – dorsal view, B – lateral view, C – labels)
FIG. 1 in Crocodylomorph and dinosaur tracks from the lowermost Jurassic of Le Veillon (western France): ichnotaxonomic revision of the type material (Lapparent collection)
FIG. 1. — Simplified geological map of the study area and location of the tracksite of Le Veillon.
Annotated and processed 3D confocal microscopy images of dorsal aorta in wild-type and Endoglin-deficient zebrafish embryos at 48 hpf and 72 hpf
<p>This repository contains the original 3D confocal microscopy images that were used for the analysis of vessel geometry and endothelial cell morphology in the dorsal aorta of wild-type and Endoglin-deficient zebrafish embryos at 48 hours post fertilization (hpf) and 72 hpf in the article <a href="https://www.biorxiv.org/content/10.1101/2024.02.19.580931">Novel mathematical approach to accurately quantify 3D endothelial cell morphology and vessel geometry based on fluorescently marked endothelial cell contours: Application to the dorsal aorta of wild-type and Endoglin-deficient zebrafish embryos</a>. In this article, we developed a novel mathematical approach that allows to consistently estimate 3D vessel geometry and endothelial cell surface morphology using only information from endothelial cell contours. For the article's analysis, endothelial cell contours were manually annotated on Pecam1-EGFP-labeled cell junctions. Furthermore, dorsal aorta cross-sections were outlined on Dextran Texas Red-perfused vessel lumens. Further details are provided in the article's Materials and methods section.</p> <p>This repository contains 14 images of 7 wild-type embryos, each imaged at 48hpf and 72hpf. Furthermore, 12 images of 6 Endoglin-deficient embryos, each imaged at 48hpf and 72hpf are included. These combined files (called "analysis data" in the article) are stored in "eng_wt_data.zip". Secondly, images of 2 wild-types at 72hpf with repeated cell contour annotation and outlined vessel lumens (called "validation data" in the article) are located in "wt_angiogram_data.zip". The provided files are stored in Imaris format and can be inspected using the free <a href="https://imaris.oxinst.com/imaris-viewer">Imaris Viewer software</a>.</p> <p>To allow inspection of the endothelial cell contours that we manually annotated for the article's analysis and compare them against the intermediate results of our novel mathematical approach, i.e., contour enrichments by neighboring cells, contour smoothing splines and their projections onto the estimated vessel surfaces, we imported these contours into the Imaris files. Note that the contours' coordinates in these files are slightly less precise than in our article's analysis and thus are intended for visual inspection. To exactly reproduce the results in our article, refer to the files in <a href="https://doi.org/10.5281/zenodo.10549101">our other Zenodo repository</a>.</p>
New vegetation type map of India prepared using satellite remote sensing: Comparison with global vegetation maps and utilities
<p>The dataset is the vegetation type map for India as per <a href="https://www.sciencedirect.com/science/article/pii/S0303243415000574?via%3Dihub">Roy et 2015 "<span>New vegetation type map of India prepared using satellite remote sensing: Comparison with global vegetation maps and utilities". </span></a></p> <p><span>The dataset consistes of two files- (1) a raster GIS file at 60m spatial resolution (EPSG 32643 WGS 84/ UTM Zone 34) in which each pixel value means a vegetation class as defined and mapped in Roy et al., 2015 and (2) a csv file which contains information matching the pixel value with the vegetation type. <br><br>For all additional information, please refer to the pper reviewed publication. </span></p>
Dataset for: Multiple-type distress detection in asphalt concrete pavement using infrared thermography and deep learning
<p>This is the dataset for the following paper: </p> <p>Fangyu Liu, Jian Liu, Linbing Wang, and Imad L. Al-Qadi. "Multiple-type distress detection in asphalt concrete pavement using infrared thermography and deep learning." Automation in Construction 161 (2024): 105355. https://doi.org/10.1016/j.autcon.2024.105355.</p> <p>Data component:</p> <ul> <li>01-Visible images: this folder includes fully visible images</li> <li>02-Infrared images: this folder includes fully infrared images</li> <li>03-Fusion(25IRT) images: this folder includes fusion images (25% infrared + 75% visible)</li> <li>04-Fusion(50IRT) images: this folder includes fusion images (50% infrared + 50% visible)</li> <li>05-Fusion(75IRT) images: this folder includes fusion images (75% infrared + 25% visible)</li> <li>06-Annotations: this folder includes annotations (xml files) based on PASCAL VOC (PASCAL Visual Object Classes Challenge) styles.</li> </ul>
Full inventory of ten permanent plots installed in pockets of different tree functional types along the Moni River transects (Yangambi, Democratic Republic of Congo)
<p>Most of the tropical forests of Central Africa are characterised by a remarkable abundance of light-demanding canopy species. A popular hypothesis is that these forests are still recovering from the intense slash-and-burn farming activities that ended abruptly in the 19th century with the arrival of the colonists. Today, it is assumed that the zones occupied by crop fields until the 19th century are covered by forests dominated by light-demanding species. However, this hypothesis of human disturbance has not yet been sufficiently tested using spatial distribution. So, using the 'Kernel Density Estimation' (KDE) tool in the SAGA GIS software, we mapped the density distribution of light-demanding species, subdivided into 3 tree functional types, along transects in the Moni river catchment. We also produced a similar map for a particular shade-tolerant species, 'Gilbertiodendron dewevrei'. The species were then divided into the following groups, known as 'functional tree types': LLP=Long-Lived Pioneer, NPLD=Non-Pioneer Light Demanding, SLP=Short-Lived Pioneer, and STS=Shade-Tolerant Species. At the end of this analysis, a density distribution map of the species of each tree functional type was produced. This map highlights the pockets (zones with a high density relative to the study site average) of tree functional types. For each type of pocket, we selected the pockets with a high density of trees of the group concerned and which were not on the edge between the forest and village crops or fallow land. This is how the location of the permanent plots was determined. Next, we installed a total of ten full forest inventory plots (1 ha each) inside and outside the pockets located by the KDE analysis along the Moni River transects. More specifically, we installed one plot in a pocket of short-lived pioneers (SLP-01), three plots in pockets of long-lived pioneers (LLP-01 to -03), two plots in pockets of NPLD (NPLD-01 and -02), two plots in pockets of the shade-tolerant species Gilbertiodendron dewevrei (GIL-01 and -02) and finally two plots were located in a mixed old-growth forest outside the pockets (MIX-01 and -02). These plots were established (1) for long-term monitoring of biodiversity and forest dynamics; and (2) to see if there is a difference in terms of species composition and abundance of light demanders between the forest inside the pockets and that outside the pockets.</p>
Figure 4 in It's a Trap! An evaluation of different passive trap types to effectively catch and control the invasive red swamp crayfish (Procambarus clarkii) in streams of the Santa Monica Mountains
Figure 4. Mean crayfish catch per trap by sex. Bars indicate standard error.
Fig. 3 in A photographic type catalogue of Platygastroidea (Insecta, Hymenoptera) in the Natural History Museum Vienna
Fig. 3. Telenomus dalmanni (Ratzeburg), syntypes, NHMW-HYM#0005386.
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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.