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456 results for “motifs”
Supplementary material 3 from: Suntronpong A, Thapana W, Twilprawat P, Prakhongcheep O, Somyong S, Muangmai N, Peyachoknagul S, Srikulnath K (2017) Karyological characterization and identification of four repetitive element groups (the 18S – 28S rRNA gene, telomeric sequences, microsatellite repeat motifs, Rex retroelements) of the Asian swamp eel (Monopterus albus). Comparative Cytogenetics 11(3): 435-462. https://doi.org/10.3897/compcytogen.v11i3.11739
Supplementary Table 3 : Data type: Table
Supplementary material 7 from: Suntronpong A, Thapana W, Twilprawat P, Prakhongcheep O, Somyong S, Muangmai N, Peyachoknagul S, Srikulnath K (2017) Karyological characterization and identification of four repetitive element groups (the 18S – 28S rRNA gene, telomeric sequences, microsatellite repeat motifs, Rex retroelements) of the Asian swamp eel (Monopterus albus). Comparative Cytogenetics 11(3): 435-462. https://doi.org/10.3897/compcytogen.v11i3.11739
Supplementary Figure 2 : Data type: Image
Supplementary material 2 from: Suntronpong A, Thapana W, Twilprawat P, Prakhongcheep O, Somyong S, Muangmai N, Peyachoknagul S, Srikulnath K (2017) Karyological characterization and identification of four repetitive element groups (the 18S – 28S rRNA gene, telomeric sequences, microsatellite repeat motifs, Rex retroelements) of the Asian swamp eel (Monopterus albus). Comparative Cytogenetics 11(3): 435-462. https://doi.org/10.3897/compcytogen.v11i3.11739
Supplementary Table 2 : Data type: Table
Supplementary material 6 from: Suntronpong A, Thapana W, Twilprawat P, Prakhongcheep O, Somyong S, Muangmai N, Peyachoknagul S, Srikulnath K (2017) Karyological characterization and identification of four repetitive element groups (the 18S – 28S rRNA gene, telomeric sequences, microsatellite repeat motifs, Rex retroelements) of the Asian swamp eel (Monopterus albus). Comparative Cytogenetics 11(3): 435-462. https://doi.org/10.3897/compcytogen.v11i3.11739
Supplementary Figure 1 : Data type: Image
INTERPRETATION OF MOTIFS AND IMAGES CHARACTERISTIC OF FOLKLORE IN THE STORY
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Molecular basis for the increased affinity of an RNA recognition motif with re-engineered specificity: A molecular dynamics and enhanced sampling simulations study- PART 6
<p>Trajectories and input files of the simulations of the S151T Rbfox*·pre-miR20b* system.</p>
Molecular basis for the increased affinity of an RNA recognition motif protein engineered to re-direct its specificity -PART 4
<p>Trajectory and input files for the simulation of the Rbfox* variant. </p>
Molecular basis for the increased affinity of an RNA recognition motif with re-engineered specificity: A molecular dynamics and enhanced sampling simulations study- PART 1
<p>Simulations of the Rbfox protein.</p> <p> </p>
Interactive Structural Analysis of KH3-4 Didomains of IGF2BPs with Preferred RNA Motif Having m6A through Dynamics Simulation Studies
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Data from: The network motif architecture of dominance hierarchies
The widespread existence of dominance hierarchies has been a central puzzle in social evolution, yet we lack a framework for synthesizing the vast empirical data on hierarchy structure in animal groups. We applied network motif analysis to compare the structures of dominance networks from data published over the past 80 years. Overall patterns of dominance relations, including some aspects of non-interactions, were strikingly similar across disparate group types. For example, nearly all groups exhibited high frequencies of transitive triads, whereas cycles were very rare. Moreover, pass-along triads were rare, and double-dominant triads were common in most groups. These patterns did not vary in any systematic way across taxa, study settings (captive or wild) or group size. Two factors significantly affected network motif structure: the proportion of dyads that were observed to interact and the interaction rates of the top-ranked individuals. Thus, study design (i.e. how many interactions were observed) and the behaviour of key individuals in the group could explain much of the variations we see in social hierarchies across animals. Our findings confirm the ubiquity of dominance hierarchies across all animal systems, and demonstrate that network analysis provides new avenues for comparative analyses of social hierarchies.
Raw motif mapping bedfile data and model training set class probabilities
<p>Leveraging prior viral genome sequencing data to make predictions on whether an unknown, emergent virus harbors a 'phenotype-of-concern' has been a long-sought goal of genomic epidemiology. A predictive phenotype model built from nucleotide-level information alone is challenging with respect to RNA viruses due to the ultra-high intra-sequence variance of their genomes, even within closely related clades. We developed a degenerate k-mer method to accommodate this high intra-sequence variation of RNA virus genomes for modeling frameworks. By leveraging a taxonomy-guided 'group-shuffle-split' cross validation paradigm on complete coronavirus assemblies from prior to October 2018, we trained multiple regularized logistic regression classifiers at the nucleotide k-mer level. We demonstrate the feasibility of this method by finding models accurately predicting withheld SARS-CoV-2 genome sequences as human pathogens and accurately predicting withheld Swine Acute Diarrhea Syndrome coronavirus (SADS-CoV) genome sequences as non-human pathogens. Feature selection using L1 regularization identified several degenerate nucleotide predictor motifs with high model coefficients for the human pathogen class that were present across widely disparate clades of coronaviruses. However, these motifs differed in which genes they were present in, what specific codons were used to encode them, and what the translated amino acid motif was. This emphasizes the importance of a phenetic view of emerging pathogenic RNA viruses, as opposed to the canonical phylogenetic interpretations most commonly used to track and manage viral zoonoses. Applying our model to more recent Orthocoronavirinae genomes deposited since October 2018 yields a novel contextual view of pathogen potential across bat-related, canine-related, porcine-related, and rodent-related coronaviruses and critical adaptations which may have contributed to the emergence of the pandemic SARS-CoV-2 virus. Finally, we discuss the next steps to achieve robust predictive ensembles and the utility of these models (and their associated predictor motifs) to novel biosurveillance protocols that substantially increase the 'pound-for-pound' information content of field-collected sequencing data and make a strong argument for the necessity of routine collection and sequencing of zoonotic viruses. </p>
Fig. 2 in Meroterpenoids containing benzopyran or benzofuran motif from Ganoderma cochlear
Fig. 2. Key COSY and HMBC correlations of 1 5, 8, and 9.
Fig. 1 in Meroterpenoids containing benzopyran or benzofuran motif from Ganoderma cochlear
Fig. 1. Structures of 1 9 from G. cochlear and revised structure of cochlearol K.
Fig. 3 in Meroterpenoids containing benzopyran or benzofuran motif from Ganoderma cochlear
Fig. 3. Key ROESY correlations of 1 3, 5, and 8.
Data from: Regulation of Somatostatin receptor 2 trafficking by C-tail motifs and the retromer
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Data from: The evolutionary conservation of the A Disintegrin-like and Metalloproteinase domain with Thrombospondin-1 motif metzincins across vertebrate species and their expression in teleost zebrafish
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Data from: The network motif architecture of dominance hierarchies
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Data from: Meta-analysis of Arabidopsis thaliana phospho-proteomics data reveals compartmentalization of phosphorylation motifs
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Raw motif mapping bedfile data and model training set class probabilities
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Data from: Genetic regulatory network motifs constrain adaptation through curvature in the landscape of mutational (co)variance
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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.