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63 results for “COG”
Public sequence accessions from INSDC, COG-UK and CNCB and EPI_SET from GISAID for SARS-CoV-2 genome sequences in 2023-08-01 UShER tree
<p>Genome sequences and metadata for the accessions in the .tsv.gz (gzip-compressed tab-separated text) files are freely available from their corresponding sources:</p><ul><li>insdc.accessionNameDate.tsv.gz: INSDC (GenBank, ENA, DDBJ) sequences and metadata may be downloaded using NCBI Datasets: https://www.ncbi.nlm.nih.gov/datasets/taxonomy/2697049/ (7,361,734 accessions used on 2023-08-01)</li><li>cog.accessionNameDate.tsv.gz: COG-UK sequences and metadata may be downloaded from https://cog-uk.s3.climb.ac.uk/phylogenetics/latest (as of publication); most COG-UK sequences have been submitted to ENA and are available from INSDC/NCBI Datasets as well. (724,978 accessions used on 2023-08-01)</li><li>cncb.accessionNameDate.tsv.gz: Sequences and metadata from several databases at the China National Center for Bioinformation (CNCB) may be downloaded from GenBase: https://ngdc.cncb.ac.cn/genbase/ (26,604 accessions used on 2023-08-01)</li></ul><p>GISAID data are subject to restrictions on sharing described in https://gisaid.org/terms-of-use/. Genome sequences and metadata are available to registered GISAID users as part of EPI_SET_231106ax at https://doi.org/10.55876/gis8.231106ax (7,718,061 accessions used on 2023-08-01).</p>
COG-UK Viral Genome Sequences
<p>COG-UK Consortium has published dataset contains over 10K SARS-CoV-2 viral genome sequences available as open access. The current COVID-19 pandemic, caused by the SARS-CoV-2 virus, represents a major threat to health in the UK and globally. To fully understand the transmission and evolution of the virus requires sequencing and analysing viral genomes at scale and speed. The numbers of samples calls for a rapid increase in the UK’s pathogen genome sequencing capacity rapidly and robustly. To provide this increased capacity to collect, sequence and analyse the whole genomes of virus samples in the UK, the COVID-19 Genomics UK (COG-UK) consortium is pooling the world-leading knowledge and expertise in genomics of the four UK Public Health Agencies, multiple regional University hubs, and large sequencing centres such as the Wellcome Sanger Institute.</p> <ul> <li>Protocols: https://www.cogconsortium.uk/protocols/</li> </ul>
COG-BCI database: A multi-session and multi-task EEG cognitive dataset for passive brain-computer interfaces
<p>Brain-Computer Interfaces, and especially passive Brain-Computer Interfaces (pBCI), with their ability to estimate and detect mental states, are receiving increasing attention from both the scientific and the research and development communities. Many pBCIs aim to increase the safety of complex work environments such as in the aeronautical domain. Therefore, mental workload, vigilance and decision-making are some of the most commonly examined aspects of cognition within this field of research. A large proportion of pBCIs involve a component of machine learning and signal processing as the data that are collected need to be transformed into a reliable estimate of the users’ current mental state (e.g. mental workload). Improving this component is a major challenge for researchers, requiring large quantities of data. While data sharing is common for the active BCI community, open pBCI datasets are scarcer and generally incomplete with regards to the information they report. This is particularly true for datasets encompassing several tasks or sessions, which are of importance for tackling the challenges of transfer learning. Testing new pipelines, feature extraction algorithms and classifiers are central issues for future advances in research within this domain, as well as for algorithm benchmark and research reproducibility.The COG-BCI database presented here is comprised of the recordings of 29 participants over 3 individual sessions with 4 different tasks designed to elicit different cognitive states. This results in a total of over 100 hours of open electrophysiological (EEG) and electrocardiogram (ECG) data. The project was validated by the local ethical committee of the University of Toulouse (CER number 2021-342). The dataset was validated on a subjective, behavioral and physiological level (i.e. cardiac and cerebral activity), to ensure its usefulness to the pBCI community. This body of work represents a large effort to promote the use of pBCIs, as well as the use of open science.</p> <p> </p> <p><strong>The data are in the Brain Imaging Data Structure (BIDS) format. For more information, please read the COG-BCI_info.pdf file.</strong></p> <p><strong>Please note that version 4 corrected an electrode name mismatch, for which we sincerely apologize. The answers to the RSME and KSS questionnaires are provided in two separate .txt files.</strong></p>
COG_Functional_Category_Abundances_and_GTDB_Taxonomy
<p><strong>Dataset S1:</strong></p> <p><strong>Individual rows correspond to individual genomes (excluding the top row which are column headers). Columns 1 through 25 correspond to raw abundances for each COG functional category. Column 26 corresponds to the total number of COGs in a genome. Columns 27, 28, 29, 30, 31, 32, and 33, correspond to the GTDB domain, phylum, class, order, family, genus, and species classification, respectively. Column 34 corresponds to the culture-status. Column 35 is the genomes size in base pairs. Column 36 corresponds to the accession number for each genome. Accessions starting with GCF and GCA are from Refseq and Genbank, respectively. Accessions that are numbers only correspond to IMG/G. Column 37 corresponds to the total number of open reading frames in the genome.</strong></p>
'Brides Cog' - Stewart's First Blender Model
Copyright © Stewart Lamb Cromar, University of Edinburgh 2018 CC BY This work is licensed under a Creative Commons Attribution 4.0 International License. http://creativecommons.org/licenses/by/4.0/ Source: Objaverse 1.0 / Sketchfab
Supplementary material to The Bremen-Cog's timber resources https://doi.org/10.1080/10572414.2022.2122243
<p>Supplementary data to Belasus and Daly 2022. <strong>The <em>Bremen-Cog</em>’s timber resources</strong>. <em>International Journal of Nautical Archaeology</em>. <a href="https://doi.org/10.1080/10572414.2022.2122243">https://doi.org/10.1080/10572414.2022.2122243</a> A summary of the dendrochronological data that forms the background to the analysis of the timbers of the Bremen Cog is presented. In addition, all tree-ring measurements from the Bremen Cog is published here.</p>
Melange (COGs and Pfams) and AntiSMASH (BGCs) annotations of the genome sequence of Lentilitoribacter sp. EG35
<p>Secondary Metabolite Encoding Biosynthetic Gene Cluster (BGC) annotation files from antiSMASH bacterial version 7.1.0 as well as Clusters of Orthologous Groups of proteins (COG) and Protein families (Pfam) annotations from the Melange pipeline (<a href="https://github.com/sandragodinhosilva/melange">https://github.com/sandragodinhosilva/melange</a>) of the genome assembly of <em>Lentilitoribacter </em>sp. strain EG35, isolated from the temperate octocoral <em>Eunicella gazella</em> sampled in the Northeast Atlantic Ocean, Portugal. </p> <p>The data correspond to the genome assembly of EG35 available under the BioProject accession number<a href="https://www.ncbi.nlm.nih.gov/bioproject/1075806"> PRJNA1135483</a>.</p> <p>To interactively view the AntiSMASH results, please download and extract the entire content of the AntiSMASH folder, and open the HTML file named "index".</p> <p><strong>This dataset is part of the following study:</strong></p> <p><strong>Tina Keller-Costa, Selene Madureira, Ana S. Fernandes, Lydia Kozma, Jorge M.S. Gonçalves, Cristina Barroso, Conçeicão Egas, & Rodrigo Costa<sup> </sup>2024. Genome sequence of the marine alphaproteobacterium <em>Lentilitoribacter</em> sp. EG35 isolated from the temperate octocoral <em>Eunicella gazella</em>. Microbiology Resource Announcements. MRA00872-24.</strong></p>
Assessing the Impact of Calcium Channel Blockers on COGnitive Function in the Very Elderly (AI-COG)
ClinicalTrials.gov study NCT01868165. IPD Sharing: NO. Countries: 1. Publications: 1.
Management of Cognitive Difficulties After Cancer Treatments in Women Treated for Breast Cancer: Feasibility Study (Step 1 of the Cog-Stim Protocol)
ClinicalTrials.gov study NCT04213365. IPD Sharing: NO. Countries: 1. Publications: 1.
5-Cog Battery for Detecting Cognitive Impairment and Dementia
ClinicalTrials.gov study NCT03816644. IPD Sharing: YES. Countries: 1. Publications: 3.
5-Cog 2.0: A Pragmatic Clinical Trial
ClinicalTrials.gov study NCT05515224. IPD Sharing: YES. Countries: 1. Publications: 1.
Use of Cognitive Stimulation Software for Patients Over the Age of 70 Followed for Breast Cancer: COG-TAB-AGE Feasibility Study
ClinicalTrials.gov study NCT04261153. IPD Sharing: NO. Countries: 1. Publications: 1.
Cog-VACCINE: Cognitive Training in Patients With Vascular Cognitive Impairment, no Dementia
ClinicalTrials.gov study NCT02640716. IPD Sharing: NO. Countries: 1. Publications: 2.
COG and Pfam annotation results of the genome sequences of four novel Endozoicomonas strains associated with the octocoral Litophyton in a long-term aquarium facility
<p>COG and Pfam annotation files from DOE-JGI Microbial Genome Annotation Pipeline (MGAP) version 4(1), for four <em>Endozoicomonas</em> strains associated with the tropical octocoral Litophyton in a long-term aquarium facility. Data correspond to the assemblies of NE35, NE40, NE41, and NE43, available under the BioProject accession numbers <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075803">PRJNA1075803</a>, <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075804">PRJNA1075804</a>, <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075805">PRJNA1075805</a> and <a href="https://www.ncbi.nlm.nih.gov/bioproject/1075806">PRJNA1075806</a>, respectively. Results were submitted to the Integrated Microbial Genomes and Microbiomes system v7 (IMG/M) (2) for comparative analysis. The genome annotations can be interactively accessed on IMG/M (https://img.jgi.doe.gov/cgi-bin/m/main.cgi) using the following identifiers: 8036267134 (strain NE35), 8036277142 (strain NE40), 8045494135 (strain NE41); 8036272146 (strain NE43). </p> <p>This dataset is part of the following study:</p> <p>Marques M, da Silva DMG, Santos E, Baylina N, Peixoto R, Kyrpides NC, Woyke T, Whitman WB, Keller-Costa T, Costa R. 2024. Genome sequences of four novel <em>Endozoicomonas </em>strains associated with a tropical octocoral in a long-term aquarium facility. Microbiology Resource Announcements</p> <p> </p> <p>Other reference sources:</p> <p>(1) Huntemann M, Ivanova NN, Mavromatis K, James Tripp H, Paez-Espino D, Palaniappan K, Szeto E, Pillay M, Chen IMA, Pati A, Nielsen T, Markowitz VM, Kyrpides NC. 2015. The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4). Stand Genomic Sci 10:1–6.</p> <p>(2) Chen IMA, Chu K, Palaniappan K, Ratner A, Huang J, Huntemann M, Hajek P, Ritter SJ, Webb C, Wu D, Varghese NJ, Reddy TBK, Mukherjee S, Ovchinnikova G, Nolan M, Seshadri R, Roux S, Visel A, Woyke T, Eloe-Fadrosh EA, Kyrpides NC, Ivanova NN. 2023. The IMG/M data management and analysis system v.7: content updates and new features. Nucleic Acids Res 51:D723–D732.</p>
COG-REAGENT: COGnitive tRaining in patiEnts With Amnestic Mild coGnitive impairmENT
ClinicalTrials.gov study NCT04063956. IPD Sharing: Not stated. Countries: 1. Publications: 1.
COG-UK Project Hospital-Onset COVID-19 Infections Study
ClinicalTrials.gov study NCT04405934. IPD Sharing: YES. Countries: 1. Publications: 1.
MENDS Study: Trial in Ventilated ICU Patients Comparing an Alpha2 Agonist Versus a Gamma Aminobutyric Acid (GABA)-Agonist to Determine Delirium Rates, Efficacy of Sedation, Analgesia and Discharge Cog
ClinicalTrials.gov study NCT00095251. IPD Sharing: Not stated. Countries: 1. Publications: 14.
Cog-Fun Ageing Participation-centered, Health Promotion for Older Adults
ClinicalTrials.gov study NCT06632145. IPD Sharing: UNDECIDED. Countries: 1. Publications: 2.
Testing the Cog-Fun Aging Program for Older Adults With Subjective Cognitive Decline
ClinicalTrials.gov study NCT06816797. IPD Sharing: NO. Countries: 1. Publications: 4.
Pazopanib Paediatric Phase II Trial Children's Oncology Group (COG) in Solid Tumors
ClinicalTrials.gov study NCT01956669. IPD Sharing: YES. Countries: 7. Publications: 0.
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
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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.