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Dataset results
58 results for “residual analysis”
Data from: Temporal dynamics of snowmelt nutrient release from snow–plant residue mixtures: an experimental analysis and mathematical model development
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New insights into early medieval Islamic cuisine: organic residue analysis of pottery from rural and urban Sicily (GCMS DATA FILES)
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Data from: Multiple-trait genome-wide association study based on principal component analysis for residual covariance matrix
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Measuring resilience and resistance in aging and Alzheimer disease using residual methods: A systematic review and meta-analysis
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Data from: Environmental stress correlates with increases in both genetic and residual variances: a meta-analysis of animal studies
Adaptive evolutionary responses are determined by the strength of selection and the amount of genetic variation within traits, however, both are known to vary across environmental conditions. As selection is generally expected to be strongest under stressful conditions, understanding how the expression of genetic variation changes across stressful and benign environmental conditions is crucial for predicting the rate of adaptive change. While theory generally predicts increased genetic variation under stress, previous syntheses of the field has found limited support for this notion. These studies have focused on heritability, which is dependent on other environmentally sensitive, but non-genetic, sources of variation. Here, we aim to complement these studies with a meta-analysis where we examine changes in coefficient of variation (CV) in maternal, genetic, and residual variances across stressful and benign conditions. Confirming previous analyses, we did not find any clear direction in how heritability changes across stressful and benign conditions. However, when analyzing CV, we found higher genetic and residual variance under highly stressful conditions in life-history traits but not in morphological traits. Our findings are of broad significance to contemporary evolution suggesting that rapid evolutionary adaptive response may be mediated by increased evolutionary potential in stressed populations.
Data from: Structure-based network analysis of activation mechanisms in the ErbB family of receptor tyrosine kinases: the regulatory spine residues are global mediators of structural stability and allosteric interactions
The ErbB protein tyrosine kinases are among the most important cell signaling families and mutation-induced modulation of their activity is associated with diverse functions in biological networks and human disease. We have combined molecular dynamics simulations of the ErbB kinases with the protein structure network modeling to characterize the reorganization of the residue interaction networks during conformational equilibrium changes in the normal and oncogenic forms. Structural stability and network analyses have identified local communities integrated around high centrality sites that correspond to the regulatory spine residues. This analysis has provided a quantitative insight to the mechanism of mutation-induced "superacceptor" activity in oncogenic EGFR dimers. We have found that kinase activation may be determined by allosteric interactions between modules of structurally stable residues that synchronize the dynamics in the nucleotide binding site and the αC-helix with the collective motions of the integrating αF-helix and the substrate binding site. The results of this study have pointed to a central role of the conserved His-Arg-Asp (HRD) motif in the catalytic loop and the Asp-Phe-Gly (DFG) motif as key mediators of structural stability and allosteric communications in the ErbB kinases. We have determined that residues that are indispensable for kinase regulation and catalysis often corresponded to the high centrality nodes within the protein structure network and could be distinguished by their unique network signatures. The optimal communication pathways are also controlled by these nodes and may ensure efficient allosteric signaling in the functional kinase state. Structure-based network analysis has quantified subtle effects of ATP binding on conformational dynamics and stability of the EGFR structures. Consistent with the NMR studies, we have found that nucleotide-induced modulation of the residue interaction networks is not limited to the ATP site, and may enhance allosteric cooperativity with the substrate binding region by increasing communication capabilities of mediating residues.
Data from: Molecular analysis of caffeoyl residues related to pigmentation in green cotton fibers
The pigment components in green cotton fibers were isolated and identified as 22-O-caffeoyl-22-hydroxymonodocosanoin and 22-O-caffeoyl-22-hydroxydocosanoic acid. The concentration of 22-O-caffeoyl-22-hydroxymonodocosanoin was correlated positively with the degree of green fibers of color, indicating a role of caffeoyl derivatives in pigmentation of green cotton fibers. Upland cotton (Gossypium hirsutum L.) contains four genes (Gh4CL1 to Gh4CL4) encoding 4-coumarate:CoA ligase (4CL), key enzymes of the phenylpropanoid biosynthesis pathway. In 15 to 24 days-post anthesis fibers, the expression level of Gh4CL1 was very low, Gh4CL3 had a similar expression level between the white and green cottons, Gh4CL2 had a significantly higher expression level in the green fibers than in the white fibers, whereas Gh4CL4 seemed to have a higher expression level in the white fibers than in the green fibers. According to enzyme kinetics analysis, Gh4CL1 displayed a preference for 4-coumarate, Gh4CL3 and Gh4CL4 exhibited a somewhat low but still prominent activity towards ferulate, while Gh4CL2 had a strong preference for caffeate and ferulate. These results suggest that Gh4CL2 might be involved in the metabolism of caffeoyl residues and related to pigment biosynthesis in green cotton fibers. Our findings provide insights for understanding biochemical and molecular mechanisms of pigmentation in green cotton fibers.
Data from: The interaction of fatigue cracks with a residual stress field using thermoelastic stress analysis and synchrotron x-ray diffraction experiments
This article presents an experimental study on the fatigue behaviour of cracks emanating from cold-expanded holes utilising thermoelastic stress analysis (TSA) and synchrotron x-ray diffraction (SXRD) techniques with the aim of resolving the long-standing ambiguity in the literature regarding potential relaxation, or modification, of beneficial compressive residual stresses as a result of fatigue crack propagation. The crack growth rates are found to be substantially lower as the crack tip moved through the residual stress zone induced by cold expansion. The TSA results demonstrated that the crack tip plastic zones were reduced in size by the presence of the residual compressive stresses induced by cold expansion. The crack tip plastic zones were found to be insignificant in size in comparison to the residual stress zone resulting from cold expansion, which implied that they were unlikely to have had a notable impact on the surrounding residual stresses induced by cold expansion. The residual stress distributions measured along the direction of crack growth, using SXRD, showed no signs of any significant stress relaxation or redistribution, which validates the conclusions drawn from the TSA data. Fractographic analysis qualitatively confirmed the influence on crack initiation of the residual stresses induced by the cold expansion. It was found that the application of single compressive overload caused a relaxation, or reduction in the residual stresses, which has wider implications for improving the fatigue life.
Functionally Important Residues from Graph Analysis of Co-evolved Dynamical Couplings
<p>This dataset contains input files and trajectories for class A β-lactamase SHV-1.</p>
PrOgnostic imPlicaTIons of 2-diMensIonal Patterns for Residual Disease After Stenting CharacteriZEd by Quantitative Flow Ratio Pullback Curve Analysis
ClinicalTrials.gov study NCT05125107. IPD Sharing: NO. Countries: 0. Publications: 3.
Data from: Molecular analysis of caffeoyl residues related to pigmentation in green cotton fibers
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Data from: The interaction of fatigue cracks with a residual stress field using thermoelastic stress analysis and synchrotron x-ray diffraction experiments
Open the record for dataset details and reuse information.
Data from: Environmental stress correlates with increases in both genetic and residual variances: a meta-analysis of animal studies
Open the record for dataset details and reuse information.
Data from: Structure-based network analysis of activation mechanisms in the ErbB family of receptor tyrosine kinases: the regulatory spine residues are global mediators of structural stability and allosteric interactions
Open the record for dataset details and reuse information.
Phenotypic and genomic analysis of multiple myeloma minimal residual disease clonal plasma cells: a new model to understand chemoresistance
GEO Series GSE70399. Homo sapiens. 30 samples. Type: Genome variation profiling by SNP array; Expression profiling by array.
Transcriptomic analysis of HCC1954 Parental(Pa), synchronous (S-BM), latent residual (Lat) or metachronous (M-BM) brain metastases cells
GEO Series GSE180098. Homo sapiens. 15 samples. Type: Expression profiling by high throughput sequencing.
Identification of m6A residues at single nucleotide resolution using eCLIP and an accessible custom analysis pipeline
GEO Series GSE147440. Homo sapiens. 17 samples. Type: Expression profiling by high throughput sequencing.
Phenotypic and genomic analysis of multiple myeloma minimal residual disease clonal plasma cells: a new model to understand chemoresistance [CytoScan750K Copy Number, LOH]
GEO Series GSE70397. Homo sapiens. 24 samples. Type: Genome variation profiling by SNP array.
Single Cell Analysis Unveils the Role of the Tumor Immune Microenvironment and Notch Signaling in Dormant Minimal Residual Disease
GEO Series GSE171464. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing.
A transcriptomic analysis of Neurospora crassa using five major crop residues and the novel role of the sporulation regulator rca-1 in lignocellulase production
GEO Series GSE60986. Neurospora crassa OR74A. 6 samples. Type: Expression profiling by high throughput sequencing.
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.