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Found 15 result(s)

EnvBase

EnvBase data catalogue

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<<<!!!<<<This is an archive of the old NEBC site from nebc.nerc.ac.uk and is no longer updated. For new information regarding NERC Environmental Omics and the Bio-Linux system please see the EOS site at http://environmentalomics.org. >>>!!!>>> Ongoing NEBC activities, including the development of Bio-Linux, are being moved into the new EOS programme http://environmentalomics.org/portfolio/big-data-infrastructure/ . Once the current material from this website has been moved into EOS, this NEBC site will remain on-line as an archive. EnvBase is the searchable index to the data deposited through the NEBC, as well as related NERC experimental data. At present this is chiefly from the grants funded by the NERC Environmental Genomics Science Programme and the subsequent Post-genomics and Proteomics Science Programme, but more data from ongoing projects continues to be added

e!DAL - electronic Data Archive Library

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!!! <<< this record is no longer maintained, please use https://www.re3data.org/repository/r3d100011876 or https://www.re3data.org/repository/r3d100011647 >>> !!!: e!DAL stands for electronic Data Archive Library. It is a lightweight open source software software framework for publishing and sharing research data. e!DAL was developed based on experiences coming from decades of research data management and has grown towards being a general data archiving and publication infrastructure [https://doi.org/10.1186/1471-2105-15-214]. First research data repository is "Plant Genomics and Phenomics Research Data Repository" [https://doi.org/10.1093/database/baw033].

Plant Genomics and Phenomics Research Data Repository

PGP Repository

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The Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) and German Plant Phenotyping Network (DPPN) has jointly initiated the Plant Genomics and Phenomics Research Data Repository (PGP) as infrastructure to comprehensively publish plant research data. This covers in particular cross-domain datasets that are not being published in central repositories because of its volume or unsupported data scope, like image collections from plant phenotyping and microscopy, unfinished genomes, genotyping data, visualizations of morphological plant models, data from mass spectrometry as well as software and documents.

Organelle Genome Megasequencing Program

OGMP

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The Organelle Genome Megasequencing Program (OGMP) provides mitochondrial, chloroplast, and mitochondrial plasmid genome data. OGMP tools allow direct comparison of OGMP and NCBI validated records. Includes GOBASE, a taxonomically broad organelle genome database that organizes and integrates diverse data related to mitochondria and chloroplasts.

EMBL-EBI

European Molecular Biology Laboratory - European Bioinformatics Institute

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The European Bioinformatics Institute (EBI) has a long-standing mission to collect, organise and make available databases for biomolecular science. It makes available a collection of databases along with tools to search, download and analyse their content. These databases include DNA and protein sequences and structures, genome annotation, gene expression information, molecular interactions and pathways. Connected to these are linking and descriptive data resources such as protein motifs, ontologies and many others. In many of these efforts, the EBI is a European node in global data-sharing agreements involving, for example, the USA and Japan.

NAGRP Blast Center

National Animal Genome Research Program Blast Center

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NAGRP Blast Center aggregates various sequence databases and makes them accessible via its website.

NCBI dbVar

Database of genomic structural VARiation

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The dbVar is a database of genomic structural variation containing data from multiple gene studies. Users can browse data containing the number of variant cells from each study, and filter studies by organism, study type, method and genomic variant. Organisms include human, mouse, cattle and several additional animals. ***NCBI will phase out support for non-human organism data in dbSNP and dbVar beginning on September 1, 2017 ***

SciLifeLab Data Repository

SciLifeLab figshare

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This repository accepts data from life science researchers and service units in Sweden. The repository is operated by SciLifeLab, which is the national infrastructure for life science and environmental research in Sweden. This repository replaces NBIS DOI repository: https://doi.org/10.17616/R3CW52

Online Mendelian Inheritance in Animals

OMIA

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Online Mendelian Inheritance in Animals (OMIA) is a catalogue/compendium of inherited disorders, other (single-locus) traits, and genes in 218 animal species (other than human and mouse and rats, which have their own resources) authored by Professor Frank Nicholas of the University of Sydney, Australia, with help from many people over the years. OMIA information is stored in a database that contains textual information and references, as well as links to relevant PubMed and Gene records at the NCBI, and to OMIM and Ensembl.

NCBI Protein Clusters

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The Entrez Protein Clusters database contains annotation information, publications, structures and analysis tools for related protein sequences encoded by complete genomes. The data available in the Protein Clusters Database is generated from prokaryotic genomic studies and is intended to assist researchers studying micro-organism evolution as well as other biological sciences. Available genomes include plants and viruses as well as organelles and microbial genomes.

SILVA

A comprehensive on-line resource for quality checked and aligned ribosomal RNA sequence data.

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SILVA is a comprehensive, quality-controlled web resource for up-to-date aligned ribosomal RNA (rRNA) gene sequences from the Bacteria, Archaea and Eukaryota domains alongside supplementary online services. In addition to data products, SILVA provides various online tools such as alignment and classification, phylogenetic tree calculation and viewer, probe/primer matching, and an amplicon analysis pipeline. With every full release a curated guide tree is provided that contains the latest taxonomy and nomenclature based on multiple references. SILVA is an ELIXIR Core Data Resource.

NCBI Genome

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<<<!!!<<< Effective May 2024, NCBI's Genome resource will no longer be available. NCBI Genome data can now be found on the NCBI Datasets taxonomy pages. https://www.re3data.org/repository/r3d100014298 >>>!!!>>> The Genome database contains annotations and analysis of eukaryotic and prokaryotic genomes, as well as tools that allow users to compare genomes and gene sequences from humans, microbes, plants, viruses and organelles. Users can browse by organism, and view genome maps and protein clusters.

IPK Gatersleben

Leibniz Institute of Plant Genetics and Crop Plant Research

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The IPK stores a large volume of research results and information in various databases. The Institute of Plant Genetics and Crop Plant Research IPK Gatersleben, is a nonprofit research institution for crop genetics and molecular biology, and is part of the Leibniz Association. The mission of the IPK Gatersleben is to conduct basic and applied research in the area of plant genetics and crop plant research. The results of this work are not only of significant benefit to plant breeders and the agricultural industry, but also to the food, feed, and chemical industry. An additional research area, the use of renewable raw materials, is increasingly gaining in importance.

Ensembl Protists

e!EnsemblProtists

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EnsemblProtists is a genome-centric portal for protists species.

1000 Genomes

Thousand Genomes

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The 1000 Genomes Project is an international collaboration to produce an extensive public catalog of human genetic variation, including SNPs and structural variants, and their haplotype contexts. This resource will support genome-wide association studies and other medical research studies. The genomes of about 2500 unidentified people from about 25 populations around the world will be sequenced using next-generation sequencing technologies. The results of the study will be freely and publicly accessible to researchers worldwide. The International Genome Sample Resource (IGSR) has been established at EMBL-EBI to continue supporting data generated by the 1000 Genomes Project, supplemented with new data and new analysis.