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13,587 results for “specification”
Collection data and molecular datasets for: Defining species-specific seed sourcing strategies for restoration: An example of how to use genetic data to inform seed collections for multiple co-occurring species
<p>Two files for each dataset are provided:</p> <p>Metadata files contain colelcting information for the samples in each molecular dataset as well as the group assignments (species, genetic neighbourhood and sites) used in analyses, saved as an excel spreadsheet.</p> <p>Molecular datasets containing samples and SNPs used in analyses. The data is formatted as a genlight object saved as an RData file that can be read into the R statisical environment and analysed using the 'dartR' package (Gruber et al. 2018).</p>
Spatial transcriptomics defines injury specific microenvironments and cellular interactions in kidney regeneration and disease
<p>This dataset contains raw and processed seqFISH data quantifying 1300 genes within single cells from three Acute Kidney Injury (AKI) and three control mice kidneys. The dataset also contains the codebook and probe sequences used to create probe libraries for the seqFISH experiments.</p> <p><strong>Supplementary_data_tables</strong> folder contains the supplementary data tables for the manuscript: Data_1 contains DE gene expression, Data_2 and Data_3 contain the codebook and probe sequence information needed to generate the probe libraries used for the seqFISH experiments. Data_4 contains the probe sequence information needed to generate the serial probes against <em>Vcam1</em> and <em>Havcr1</em></p> <p><strong>AKI_Ctrl_object.rds</strong> - Seurat object generated from seqFISH data for the AKI and healthy control mice as detailed in the manuscript.</p> <p><strong>Counts_raw.csv </strong>contains raw gene counts for all cells in the dataset.</p> <p><strong>coordinates.csv</strong> contains the xy coordinates (in um) for every cell in the dataset.</p> <p><strong>metadata.csv</strong> contains the metadata for each cell in the dataset including sample and cell type allocation as well as Microenvironment (ME) assignment. This file also contains expression data of <em>Vcam1</em> and <em>Havcr1, </em>which were detected using serial probes as detailed in the manuscript.</p>
Spatial transcriptomics defines injury specific microenvironments and cellular interactions in kidney regeneration and disease
<p>Kidney injury disrupts the intricate renal architecture and triggers limited regeneration, and injury-invoked inflammation and fibrosis. Deciphering molecular pathways and cellular interactions driving these processes is challenging due to the complex renal architecture. Here, we apply single cell spatial transcriptomics to examine ischemia-reperfusion injury in the mouse kidney. Spatial transcriptomics reveals injury-specific and spatially-dependent gene expression patterns in distinct cellular microenvironments within the kidney and predicts <em>Clcf1-Crfl1</em> in a molecular interplay between persistently injured proximal tubule cells and neighboring fibroblasts. Immune cell types play a critical role in organ repair. Spatial analysis reveals cellular microenvironments resembling early tertiary lymphoid structures and identifies associated molecular pathways. Collectively, this study supports a focus on molecular interactions in cellular microenvironments to enhance understanding of injury, repair and disease.</p>
Fig. 1 in Host specificity studies on Gynaikothrips (Thysanoptera: Phlaeothripidae) associated with leaf galls of cultivated Ficus (Rosales: Moraceae) trees
Fig. 1. Pronotal posteroangular setae showing variation in length.
Fig. 2. Four Ficus benjamina plants inside a in Host specificity studies on Gynaikothrips (Thysanoptera: Phlaeothripidae) associated with leaf galls of cultivated Ficus (Rosales: Moraceae) trees
Fig. 2. Four Ficus benjamina plants inside a collapsible cage.
Flexible modular dwelling for rural environments; specific case: Cebadas – Ecuador
<p><strong><span>Background: </span></strong><span>Sustainable modular dwelling design for rural areas should focus on creating healthy and economically accessible spaces, sensitive to local needs and integrating environmental, functional, sociological and technological aspects. Flexibility is essential to reduce the initial investment and allow future transformations, optimizing the recovery and reuse of materials. These houses must be adaptable, safe and have basic services, satisfying the needs and stages of families’ development. In Ecuador, poverty and energy inefficiency worsen the quality of life in rural areas. This project in the Cebadas parish proposes modular dwelling that applies bioclimatic and sustainable criteria, using local materials to improve habitability and promote the social and economic development of the community.</span></p> <p><strong><span>Method: </span></strong><span>The research approach is qualitative-quantitative. Qualitative, since it is necessary to identify the qualities of the sector, bibliographic exploration of guidelines and sustainable strategies. Quantitative, to evaluate the degree of affectation through a diagnosis of the study site and to provide efficient solutions that respond to the context and social reality. <strong>Results: </strong>The spaces presented in the proposal respond to the spatial need for growth and expansion of the users of the sector, through 6 basic guidelines that this type of dwelling should have: Environment, Visual, Form, Function, Bioclimatic and Materials.</span></p> <p><strong><span>Conclusions: </span></strong><span>The flexible modular dwelling project for rural environments addresses complex housing needs, highlighting the flexibility and adaptability of an expandable module. It includes income generation with a duplex apartment, fosters communal and cultural life with public and commercial spaces, promotes tourism and rural development with landscape design and crops. In addition, it ensures sustainability through bioclimatic strategies and responsible use of resources.</span></p>
Data accompanying "Latitudinal variation in the timing of nest predator activity is habitat specific"
<p>The aim of this work was to test the hypothesis that that activity patterns of bird nest predators transitions from nocturnal to diurnal with increasing latitude. We collected the identity of nest predators from published data of camera surveillance at nests on the global scale. We performed ordinal and logistic regressions to study the correlation between predator activity patterns and the latitude. This is the final data set, along with the R-scripts we used to perform the statistical analyses. Please read the "readme.txt" file before running the scripts. A list of references from which predation and activity pattern data was extracted is also provided.</p>
Genetics of Cardiac Aging Implicate Organ-Specific Variation - GWAS Summary Stats and Model Weights
Open the record for dataset details and reuse information.
Molecular basis for the increased affinity of an RNA recognition motif with re-engineered specificity: A molecular dynamics and enhanced sampling simulations study.
<p>This repository contains the representative structures of the 20 clusters obtained, which constitute the “MD-adapted structure ensemble”: i.e., sets of atomic coordinates that capture the flexibility and the pre-miR20b (<a href="https://zenodo.org/api/files/ee12021f-4398-465a-9ff6-ddb7be32765f/ensemble_MD_2n7x.pdb?versionId=310a80f6-aa64-445d-8641-45faf9f1ac03">ensemble_MD_2n7x.pdb</a>) and Rbfox/pre-miR20b (<a href="https://zenodo.org/api/files/ee12021f-4398-465a-9ff6-ddb7be32765f/ensemble_MD_2n82.pdb?versionId=82d7afcb-8a92-4daa-8150-789dbd7b2474">ensemble_MD_2n82.pdb</a>) conformers suggested by MD simulations while still retaining the highest possible level of agreement with the primary NMR data.</p>
Development of a specific PCR to detect thiocyanate-oxidizing Thioalkalivibrio strains in their environment
<p>Data repository for my thesis named 'Development of a specific PCR to detect thiocyanate-oxidizing <em>Thioalkalivibrio</em> strains in their environment' at the University of Amsterdam. The folder consists of 2 subfolders, namely the alignment, in both AA and NA forms, of the TcDH-sequences of the 10 Thioalkalivibrio strains, shown in <em>Figure 21</em> (1) and the alignment of the TcDH-sequences and names of the organisms used while making the phylogenetic tree of <em>Figure 2</em> (2).</p>
Supporting dataset for the publication 'Human T cell receptor occurrence patterns encode immune history, genetic background, and receptor specificity'
<p>This dataset accompanies the publication "Human T cell receptor occurrence patterns encode immune history, genetic background, and receptor specificity" by William S DeWitt III, Anajane Smith, Gary Schoch, John A Hansen, Frederick A Matsen IV and Philip Bradley, accepted for publication in the journal eLife. It contains data on T cell receptor occurrence patterns and repertoire features that can be processed with the software tools provided in the github repository https://github.com/phbradley/pubtcrs in order to replicate the findings of the manuscript.</p> <p> </p>
ROS-specific Huntingtin Interactions: In vitro poly-ADP ribose binding assays
<p>Poly-ADP ribose overlay assay with purified huntingtin protein to test ability of full-length and fragment huntingtin to bind poly-ADP ribose.</p>
Data from: Billeci et al. "Patient-specific seizure prediction based on heart rate variability and recurrence quantification analysis"
<p>Dataset of electrocardiogram and electroencephalogram signals (.edf) acquired in epileptic patients (N=15).</p> <p>All the patients were long-term monitored with a Video-EEG, with electrodes arranged on the basis of the international 10-20 system, and with ECG. ECG was measured simultaneously with a sampling rate of 512 Hz.</p> <p>Each data include a descriptor file (.txt) containing all the information related to the acquisition: data, registration start (time), registration end (time), seizure/s start, seizure/s end and the electrodes involved at the seizure onset.</p> <p> </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 8
<p>Simulations of the miR20b RNA with the Case vdW modification to amber force field and OPC water molecules.</p>
sentiment specific word embedding
<p>sentiment specific word embedding learned based on the approach described in the following paper:</p> <p>D. Tang, et al., Learning Sentiment-Specific Word Embedding for Twitter Sentiment Classification, ACL 2014</p> <p> </p>
ROS-Specific Huntingtin Interactions: Peptide poly ADP ribose overlay assay
<p>In vitro testing of peptides representing potential poly ADP ribose binding motifs within the huntingtin sequence.</p>
Research data supporting "Residue-Specific Solvation Directed Thermodynamic and Kinetic Control over Peptide Self-Assembly with 1D/2D Structure Selection"
<p>Experimental research raw data supporting the publication by Lin, Y. et al, 2019, "Residue-Specific Solvation Directed Thermodynamic and Kinetic Control over Peptide Self-Assembly with 1D/2D Structure Selection", ACS Nano. DOI: 10.1021/acsnano.8b08117.</p> <p>Molecular simulation data is available upon reasonable request from irene.yarovsky@rmit.edu.au.</p>
Strong gene activation in plants with genome-wide specificity using a new orthogonal CRISPR/Cas9-based Programmable Transcriptional Activator.
<p>This data set correspond to the supporting data generated in the manuscript: Strong gene activation in plants with genome-wide specificity using a new orthogonal CRISPR/Cas9-based Programmable Transcriptional Activator. </p>
Analysis of patient-specific stimulation with segmented leads in the subthalamic nucleus
<p>Supporting information for PLOS ONE article titled "Analysis of patient-specific stimulation with segmented leads in the subthalamic nucleus" by Nguyen et al. (2019)</p>
New Color Specifications for ColorChecker SG and Classic Charts - X-Rite (2016)
<p><strong>Source</strong>: <a href="https://xritephoto.com/ph_product_overview.aspx?ID=938&Action=Support&SupportID=5884">https://xritephoto.com/ph_product_overview.aspx?ID=938&Action=Support&SupportID=5884</a></p> <p>The color formulations for the ColorChecker SG and ColorChecker Classic (24 Patches) needed to be changed for regulatory and compliance reasons. This is true for all black and gray shades as well as the color shades. Charts editions, which are manufactured after November 2014 have been and will be produced with the new colorants used within our coating process.</p> <p>The production date of a ColorChecker SG and a ColorChecker Classic chart (A4 or LTR) is printed on the back side. For more information <a href="http://xritephoto.com/ph_product_overview.aspx?ID=938&Action=Support&SupportID=5883&catid=28">click here</a>.</p> <p>As a consequence, the new chart editions require the use of new colorimetric reference data for the creation of an accurate color profile. The new data can be downloaded as CGATS formatted text files from the links below. Owners of charts produced prior to November 2014 should continue referring to the reference data ‘Before November 2014’. Owners of charts after November 2014 or newer should refer to the new reference data ‘After November 2014’.</p>
ScienceDex guides
Understand access before you commit
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.