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14 results for “Biological Index”
Leaf Area Index on the GLBRC Biofuel Cropping System Experiment at the Kellogg Biological Station, Hickory Corners, MI (2009 to 2017)
Dataset AbstractThe leaf area index was measured to estimate the phenology and growth patterns of the different biofuel crops.original data source http://lter.kbs.msu.edu/datasets/225
Index and biological spectrum of accessible DNA elements in the human genome
<p>Data associated with the manuscript titled<br> "Index and biological spectrum of accessible DNA elements in the human genome"<br> <a href="https://doi.org/10.1101/822510">https://doi.org/10.1101/822510</a></p> <p>Code repositories for these data are available here:</p> <ul> <li>https://github.com/Altius/Index</li> <li>https://github.com/Altius/Vocabulary</li> </ul> <p><br> Tab-separated file with DNase I Hypersensitive Site (DHS) coordinates,<br> including DHS summits and core regions and assignments to regulatory components.<br> A separate legend file describes the contents of each column in more detail.</p> <ul> <li>DHS_Index_and_Vocabulary_hg38_WM20190703.txt.gz</li> <li>DHS_Index_and_Vocabulary_hg19_WM20190703.txt.gz (mapped using liftOver, not ideal)</li> <li>DHS_Index_and_Vocabulary_legend.txt</li> </ul> <p> </p> <p>Metadata files describing biosample characteristics and annotations,<br> provided in HTML, PDF, TSV and Excel formats:</p> <ul> <li>DHS_Index_and_Vocabulary_metadata.html</li> <li>DHS_Index_and_Vocabulary_metadata.pdf</li> <li>DHS_Index_and_Vocabulary_metadata.tsv</li> <li>DHS_Index_and_Vocabulary_metadata.xlsx</li> </ul> <p> </p> <p>Presence/absence matrix of DHSs (rows) versus biosamples (columns),<br> provided in RData, MatrixMarket and raw formats:</p> <ul> <li>dat_bin_FDR01_hg38.RData</li> <li>dat_bin_FDR01_hg38.mtx.gz</li> <li>dat_bin_FDR01_hg38.txt.gz</li> <li>dat_bin_FDR01_hg19.RData (mapped using liftOver, not ideal)</li> <li>dat_bin_FDR01_hg19.txt.gz (mapped using liftOver, not ideal)</li> </ul> <p> </p> <p>Normalized DNase-seq signal matrix of DHSs (rows) versus biosamples (columns),<br> provided in RData and raw formats:</p> <ul> <li>dat_FDR01_hg38.RData</li> <li>dat_FDR01_hg38.txt.gz</li> </ul> <p>The order of DHSs (rows) is the same as in the DHS Index file(s) above,<br> and the order of biosamples (columns) is the same as in the metadata files.</p> <p> </p> <p>Non-negative Matrix Factorization (NMF) results, decomposing the presence/absence matrix (hg38) into 16 components:</p> <ul> <li>2018-06-08NC16_NNDSVD_Mixture.npy.gz</li> <li>2018-06-08NC16_NNDSVD_Basis.npy.gz</li> </ul> <p> </p> <p>Putative transcription factor-specific regulatory elements,<br> identified using DHS Vocabulary components, TF motif databases and biosample-specific footprinting data:</p> <ul> <li>TF_associated_DHSs_hg38.tar.gz</li> </ul>
Time-Restricted Eating in Combination With a Low Glycaemic Index Diet on Cognitive Function, Biological Ageing and Metabolic Health in Perimenopause and Menopause.
ClinicalTrials.gov study NCT07378787. IPD Sharing: YES. Countries: 2. Publications: 1.
Kellogg Biological Station site, station Michigan Division 9, South Central Lower, study of Palmer Drought Severity Index in units of dimensionless on a monthly timescale
The EcoTrends project was established in 2004 by Dr. Debra Peters (Jornada Basin LTER, USDA-ARS Jornada Experimental Range) and Dr. Ariel Lugo (Luquillo LTER, USDA-FS Luquillo Experimental Forest) to support the collection and analysis of long-term ecological datasets. The project is a large synthesis effort focused on improving the accessibility and use of long-term data. At present, there are ~50 state and federally funded research sites that are participating and contributing to the EcoTrends project, including all 26 Long-Term Ecological Research (LTER) sites and sites funded by the USDA Agriculture Research Service (ARS), USDA Forest Service, US Department of Energy, US Geological Survey (USGS) and numerous universities. Data from the EcoTrends project are available through an exploratory web portal (http://www.ecotrends.info). This web portal enables the continuation of data compilation and accessibility by users through an interactive web application. Ongoing data compilation is updated through both manual and automatic processing as part of the LTER Provenance Aware Synthesis Tracking Architecture (PASTA). The web portal is a collaboration between the Jornada LTER and the LTER Network Office. The following dataset from Kellogg Biological Station (KBS) contains Palmer Drought Severity Index measurements in dimensionless units and were aggregated to a monthly timescale.
Kellogg Biological Station site, station Michigan Division 9, South Central Lower, study of Palmer Drought Severity Index in units of dimensionless on a yearly timescale
The EcoTrends project was established in 2004 by Dr. Debra Peters (Jornada Basin LTER, USDA-ARS Jornada Experimental Range) and Dr. Ariel Lugo (Luquillo LTER, USDA-FS Luquillo Experimental Forest) to support the collection and analysis of long-term ecological datasets. The project is a large synthesis effort focused on improving the accessibility and use of long-term data. At present, there are ~50 state and federally funded research sites that are participating and contributing to the EcoTrends project, including all 26 Long-Term Ecological Research (LTER) sites and sites funded by the USDA Agriculture Research Service (ARS), USDA Forest Service, US Department of Energy, US Geological Survey (USGS) and numerous universities. Data from the EcoTrends project are available through an exploratory web portal (http://www.ecotrends.info). This web portal enables the continuation of data compilation and accessibility by users through an interactive web application. Ongoing data compilation is updated through both manual and automatic processing as part of the LTER Provenance Aware Synthesis Tracking Architecture (PASTA). The web portal is a collaboration between the Jornada LTER and the LTER Network Office. The following dataset from Kellogg Biological Station (KBS) contains Palmer Drought Severity Index measurements in dimensionless units and were aggregated to a yearly timescale.
The sharing of research raw data in journals indexed in the Reproductive Biology JCR category
<p><a href="https://zenodo.org/record/2384871">Raw data belonged to the study of use and sharing of raw research data in the Journal Citation Reports' Reproductive Biology Category</a>.</p>
Small Sample-Big Data: Integrative Indexed Systems Biology Reveals Dramatic Molecular Ontogeny over the First Week of Human Life in Papua New Guinea
GEO Series GSE123070. Homo sapiens. 50 samples. Type: Expression profiling by high throughput sequencing.
Small Sample-Big Data: Integrative Indexed Systems Biology Reveals Dramatic Molecular Ontogeny over the First Week of Human Life
GEO Series GSE111404. Homo sapiens. 50 samples. Type: Expression profiling by high throughput sequencing.
Data from: An indexed, mapped mutant library enables reverse genetics studies of biological processes in Chlamydomonas reinhardtii
The green alga Chlamydomonas reinhardtii is a leading single-celled model for dissecting biological processes in photosynthetic eukaryotes. However, its usefulness has been limited by difficulties in obtaining mutants in genes of interest. To allow generation of large numbers of mapped mutants, we developed high-throughput methods which: (1) Enable easy propagation on agar and cryogenic maintenance of tens of thousands of C. reinhardtii strains; (2) Identify mutant insertion sites and physical coordinates in such collections; (3) Validate the insertion sites in pools of mutants by obtaining >500 bp of flanking genomic sequences. We used these approaches to construct a stably maintained library of 1,935 mapped mutants, representing disruptions in 1,562 genes. We further characterized randomly selected mutants, and found that 33 out of 44 insertion sites (75%) could be confirmed by PCR, and 17 out of 23 mutants (74%) contained a single insertion. To demonstrate the power of this library for elucidating biological processes, we analyzed the lipid content of mutants disrupted in genes encoding proteins of the algal lipid droplet proteome. This study revealed a central role of the long-chain acyl-CoA synthetase LCS2 in the production of triacylglycerol from de novo synthesized fatty acids.
Effects of Acupoint Massage Around Eyes on Ocular Biological Indexes
ClinicalTrials.gov study NCT06293196. IPD Sharing: Not stated. Countries: 1. Publications: 0.
The Validation and Biological Index Studies on the Improved Social Function of ASD by 40 Hz tACS
ClinicalTrials.gov study NCT06362200. IPD Sharing: NO. Countries: 1. Publications: 0.
Data from: An indexed, mapped mutant library enables reverse genetics studies of biological processes in Chlamydomonas reinhardtii
Open the record for dataset details and reuse information.
Monaco-Serial Biological Function K-value Index Constraint for Cardiac Dose
ClinicalTrials.gov study NCT06796257. IPD Sharing: NO. Countries: 0. Publications: 0.
Assessment of Capsule Endoscopy Scoring Index (CESI), Harvey-Bradshaw Index (HBI) and Biological Markers in Small Bowel Crohn's Disease (SBCD)
ClinicalTrials.gov study NCT01555437. IPD Sharing: Not stated. Countries: 0. Publications: 0.
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
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DANDI Archive for NWB datasets
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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.