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1,449 results for “stranded”
breakpointR: an R/Bioconductor package to localize strand state changes in Strand-seq data
<p>Simulated single-end Strand-seq data with various fraction of the genome covered from 0.01 to 0.075 (COV01 etc.). All files have simulated constant level of background (0.01). Simulated reads were aligned GRCH38 using bwa-mem and duplicate reads have been marked using sambamba. (See main publication for more details).</p> <p> </p>
Antiviral activity of HIV-1 integrase strand-transfer inhibitors against mutants with integrase resistance-associated mutations and their frequency in treatment-naïve individuals
<p>The development of resistance to human immunodeficiency virus 1 (HIV-1) integrase strand-transfer inhibitors (INSTI) has been documented; however, knowledge of the impact of pre-existing integrase (IN) mutations on INSTI resistance (INSTI-R) is still evolving. The frequency of HIV-1 IN mutations in 2177 treatment-naïve subjects was investigated, along with the INSTI susceptibility of site-directed mutant viruses containing major and minor INSTI-R mutations. Total 6 of 39 minor INSTI-R mutations (M50I, S119P/G/T/R, and E157Q) were found in >1% of IN-treatment-naïve subjects with no impact on INSTI susceptibility. When each combined with major INSTI-R mutation, M50I, S119P, and E157Q led to decreased susceptibility to elvitegravir but remained sensitive to dolutegravir and bictegravir.</p>
Fig. 8. Halictus pauperatulellus Strand, 1909 in Integrative taxonomy resuscitates two species in the Lasioglossum villosulum complex (Kirby, 1802) (Hymenoptera: Apoidea: Halictidae)
Fig. 8. Halictus pauperatulellus Strand, 1909, holotype, ♂. A. Head. B. Scutum. C. Propodeum. D. First tergum. E. Metasoma, dorsal view. F Metasoma, ventral view.
Raw data of "Bridging of nucleosome-proximal DNA double-strand breaks by PARP2 enhances its interaction with HPF1"
<p>Raw data used in the following article:</p> <p>Bridging of nucleosome-proximal DNA double-strand breaks by PARP2 enhances its interaction with HPF1</p> <p>Guillaume Gaullier, Genevieve Roberts, Uma M. Muthurajan, Samuel Bowerman, Johannes Rudolph, Jyothi Mahadevan, Asmita Jha, Purushka S. Rae, Karolin Luger</p> <p>bioRxiv 846618; doi: <a href="https://doi.org/10.1101/846618">https://doi.org/10.1101/846618</a></p> <p>This includes:</p> <ul> <li>uncropped and unaltered images of all SDS-PAGE and native PAGE</li> <li>all size exclusion chromatograms and light scattering data</li> <li>raw data of all fluorescence polarization and FRET binding curves</li> <li>thermal shif assay raw data</li> </ul>
Figure 7 in Review of thirty-two years of toothed whale strandings in Santa Catarina, southern Brazil (Cetacea: Odontoceti)
Figure 7. Spatial distribution of strandings of Pontoporia blainvillei, Tursiops truncatus, and Sotalia guianensis in the central region from 1983 to 2014.
Figure 6 in Review of thirty-two years of toothed whale strandings in Santa Catarina, southern Brazil (Cetacea: Odontoceti)
Figure 6. Spatial distribution of strandings of Pontoporia blainvillei, Tursiops truncatus, and Sotalia guianensis in the north region from 1983 to 2014.
Figure 5 in Review of thirty-two years of toothed whale strandings in Santa Catarina, southern Brazil (Cetacea: Odontoceti)
Figure 5. Spatial and sexual distribution of stranding records of Pontoporia blainvillei, Tursiops truncatus and Sotalia guianensis along Santa Catarina coast from 1983 to 2014.
Fig. 4. Phylogenetic analysis. Molecular analyses identified the specimens collected from CBW2 and CBW3 in Crassicaudiasis in three geographically and chronologically distant Cuvier's beaked whales (Ziphius cavirostris) stranded off Brazil
Fig. 4. Phylogenetic analysis. Molecular analyses identified the specimens collected from CBW2 and CBW3 as Crassicauda anthonyi, based on the ITS2 region, and supported by phylogenetic analysis. Analysis was performed by MEGA X 10.1 using the maximum likelihood method (1,000 bootstrap replicates) and included Habronema muscae as outgroup. GenBank accession numbers are listed along the species names. Branches with bootstrap support lower than 50% were collapsed. *Sequences obtained in this study.
Fig. 2 in Crassicaudiasis in three geographically and chronologically distant Cuvier's beaked whales (Ziphius cavirostris) stranded off Brazil
Fig. 2. The kidneys are heavily infected (A [CBW-2], B [CBW-1]) by male and female adult Crassicauda sp., which penetrate the wall of the renicular calyces, ureters, and adjacent vasculature. (C) Renal granuloma (ex situ) with coiled (sectioned) adult Crassicauda nematode segments. (D) Posterior extremity of female (upper specimen) and male (lower specimen; characteristic coiled tail).
Fig. 1 in Crassicaudiasis in three geographically and chronologically distant Cuvier's beaked whales (Ziphius cavirostris) stranded off Brazil
Fig. 1. Macroscopic features of arterial and renal crassicaudiasis in Cuvier's beaked whales (CBW; Ziphius cavirostris). (1) CBW-2. The mesenteric arteries (A, B) and caudal abdominal aorta (C) are hard, non-collapsible, tortuous, and dilated. Aa, abdominal aorta; Ma, mesenteric artery; Lu, lung.
Fig. 5 in Crassicaudiasis in three geographically and chronologically distant Cuvier's beaked whales (Ziphius cavirostris) stranded off Brazil
Fig. 5. Records of Crassicauda sp. in cetaceans stranded along the coast of Brazil including the three Cuvier beaked whales (Ziphius cavirostris) from this study, a pygmy sperm whale (Kogia breviceps) (Carvalho et al., 2010), and a Guiana dolphin (Sotalia guianensis) (Carvalho V.L., personal communication).
Fig. 2 in Specificity of Stenurus (Metastrongyloidea: Pseudaliidae) infections in odontocetes stranded along the north-west Spanish coast
Fig. 2. (A–B) Stenurus minor: posterior end of a male (A) with an undivided bursa and broad spicules and of a female (B) with a finger-shaped cuticular process on the anterior lip of the vulva (➨) and first stage larvae (L1) in the uterus (⇨). (C–D) Stenurus globicephalae: posterior end of a male (C) and a female (D) with multiple cuticular swellings (➨) and L1 in the uterus (⇨). (E–F) Stenurus ovatus: posterior end of a male (E) with a divided bursa showing three rays and a female (F) showing a conical terminal process (➨) and a cuticular swelling (⇨).
Fig. 1 in Specificity of Stenurus (Metastrongyloidea: Pseudaliidae) infections in odontocetes stranded along the north-west Spanish coast
Fig. 1. Nematodes found in the pterygoid sinuses during the necropsy of a short-finned pilot whale (Globicephala macrorhynchus).
Fig. 3 in Specificity of Stenurus (Metastrongyloidea: Pseudaliidae) infections in odontocetes stranded along the north-west Spanish coast
Fig. 3. Bipartite multigraph relating the three Stenurus species with their hosts. The width of the links (gray arrows) represents the mean parasitic load on each host.
Fig. 2 in Serious lesions in Green turtles (Chelonia mydas) afflicted by fatal Spirorchiidiasis found stranded in south and southeastern Brazil
Fig. 2. (a–b). Granulomatous Thyroiditis, Thyroid, C. mydas. Figure a. Severe follicle destruction, with decreased number of follicles. Figure a. Inset: Parasitic granulomas associated with compressed, deformed, empty follicle (arrow). Figure b. Upper Inset: Atrophic thyroid follicles with normal epithelial cell (red arrow) and randomly pyknotic follicular cells (black arrow). Additionally note a type 3 egg (red arrow). Bottom Inset: Thyroid, Normal C. mydas thyroid. Figure c. Granulomatous Splenitis, Spleen, C. mydas. Large and severe coalescent granulomas associated with marked and diffuse lymphoid depletion and periarteriolar lymphatic sheaths loss. Upper Inset: Spleen. Normal C. mydas spleen, note periarteriolar lymphatic sheaths (black arrow). Bottom Inset: Higher magnification of granulomatous splenitis associated with periarteriolar lymphoid depletion, note arteriole (black arrow) and type 3 egg (red arrow). Figure d. Granulomatous Choroiditis, Ocular Bulb, C. mydas. Choroid layer diffusely replaced by severe granulomatous inflammation. Upper Inset: Choroid layer and retina. Normal C. mydas choroid layer (between red lines) and retina. Bottom Inset: Higher magnification of severe granulomatous inflammation associated with egg type 3 (red arrow), (hematoxylin and eosin staining). (For interpretation of the references to colour in this figure legend, the reader is referred to the Web version of this article).
Fig. 1. a in Serious lesions in Green turtles (Chelonia mydas) afflicted by fatal Spirorchiidiasis found stranded in south and southeastern Brazil
Fig. 1. a. Severe and Generalized Granulomatous Interstitial Pneumonia, Lung, C. mydas. Lung tissue extensively affected by large parasitic multifocal to coalescent severe granulomas in interfaveolar septa with diffusely compressed and collapsed faveolus (*). Upper Inset: Parasite of the spirorchiidae family in pulmonary artery lumen. Bottom Inset: Lung. Normal C. mydas lung. Fig. 1 b. Severe and Generalized Granulomatous Interstitial Pneumonia, Lung, C. mydas. Higher magnification of severely enlarged interfaveolar septa with diffusely compressed and collapsed faveolus (*), note egg type 3 (red arrow). Inset: Thrombus formed by eggs, cellular debris, macrophages and multinucleated giant cells in artery. Fig. 1 c. Granulomatous Meningitis, Brain, Chelonia mydas. Parasitic granulomas associated with severe nervous tissue atrophy associated with cerebral cortex loss, note red line with 290 μm (cerebral cortex compression area) and black line (722 μm) without cerebral cortex compression. Inset: Embolism, Spinal Cord. Embolus formed by cluster of eggs (*) in arteriole. Fig. 1 d. Brain, Granulomatous Encephalitis, Chelonia mydas. Parasitic granulomas associated with neural parenchyma compression, note egg type 1 (red arrow), (hematoxylin and eosin staining). (For interpretation of the references to colour in this figure legend, the reader is referred to the Web version of this article).
Figure 4 in Notes on the genus Amerianna Strand, 1928 (Gastropoda, Planorbidae) in India
Figure 4. Maximum Likelihood tree based on the cox1 gene showing the phylogenetic relationship between Amerianna sp. 1 from New Guinea with Physella acuta as outgroup. Bootstrap results from 1000 replicates with>70% support are shown on the branches. Sequences of Amerianna sp. obtained from the Edappally canal, Kochi, Kerala, India in the present study are given with the strain numbers EC6–EC9*.
Figure 2. A–D in Notes on the genus Amerianna Strand, 1928 (Gastropoda, Planorbidae) in India
Figure 2. A–D. Shell of Amerianna sp. found in the Edappally canal, Kochi, Kerala (freshly preserved specimen).
Figure 3. A–B in Notes on the genus Amerianna Strand, 1928 (Gastropoda, Planorbidae) in India
Figure 3. A–B. Illustration of the shell of Amerianna sp. found in the Edappally canal, Kochi, Kerala.
Figure 1 in Notes on the genus Amerianna Strand, 1928 (Gastropoda, Planorbidae) in India
Figure 1. (A) present study location in Edapally canal of Kochi, Kerala, India; (B) Map showing the location of previous and present record of species of genus Amerianna from India (MH: Maharashtra & KL: Kerala); (C) habitat of Amerianna sp. collected from Edapally canal of Kochi, Kerala, India; (D and E) Habitus of Amerianna sp. from the study area.
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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.