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Found 125 result(s)
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<<<!!!<<< This repository is no longer available. >>>!!!>>>
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GENCODE is a scientific project in genome research and part of the ENCODE (ENCyclopedia Of DNA Elements) scale-up project.
The GENCODE consortium was initially formed as part of the pilot phase of the ENCODE project to identify and map all protein-coding genes within the ENCODE regions (approx. 1% of Human genome). Given the initial success of the project, GENCODE now aims to build an “Encyclopedia of genes and genes variants” by identifying all gene features in the human and mouse genome using a combination of computational analysis, manual annotation, and experimental validation, and annotating all evidence-based gene features in the entire human genome at a high accuracy.
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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.
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<<<!!!<<< As of 2023, support to maintain the www.modencode.org and intermine.modencode.org sites have been retired following the end of funding. To access data from the modENCODE project, or for questions regarding the data they make available, please visit these databases:
Fly data:
FlyBase: ModENCODE data at FlyBase: https://wiki.flybase.org/wiki/FlyBase:ModENCODE_data_at_FlyBase
FlyBase: https://www.re3data.org/repository/r3d100010591
Worm data: WormBase https://www.re3data.org/repository/r3d100010424
Data, including modENCODE and modERN project data, is also available at the ENCODE Portal: https://www.re3data.org/repository/r3d100013051 (search metadata and view datasets for Drosophila and Caenorhabditis https://www.encodeproject.org/matrix/?type=Experiment&control_type!=*&status=released&replicates.library.biosample.donor.organism.scientific_name=Drosophila+melanogaster&replicates.library.biosample.donor.organism.scientific_name=Caenorhabditis+elegans&replicates.library.biosample.donor.organism.scientific_name=Drosophila+pseudoobscura&replicates.library.biosample.donor.organism.scientific_name=Drosophila+mojavensis).
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This database will provide a central location for scientists to browse uniquely observed proteoforms and to contribute their own datasets. Top-down proteomics is a method of protein identification that uses an ion trapping mass spectrometer to store an isolated protein ion for mass measurement and tandem mass spectrometry analysis.
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Pathway Commons is a convenient point of access to biological pathway information collected from public pathway databases. Information is sourced from public pathway databases and is readily searched, visualized, and downloaded. The data is freely available under the license terms of each contributing database.
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<<<!!!<<< GSS sequences are now being merged into the NCBI Nucleotide database >>>!!!>>>
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4DGenome is a public database that archives and disseminates chromatin interaction data. Currently, 4DGenome contains over 8,038,247 interactions curated from both experimental studies (high throughput and individual studies) and computational predictions. It covers five organisms, Homo sapiens, Mus musculus, Drosophila melanogaster, Plasmodium falciparum, and Saccharomyces cerevisiae.
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<<<!!!<<<This repository is no longer available>>>!!!>>>
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The Progenetix database provides an overview of copy number abnormalities in human cancer from currently 32548 array and chromosomal Comparative Genomic Hybridization (CGH) experiments, as well as Whole Genome or Whole Exome Sequencing (WGS, WES) studies. The cancer profile data in Progenetix was curated from 1031 articles and represents 366 different cancer types, according to the International classification of Diseases in Oncology (ICD-O).
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<<<!!!<<< This repository is no longer available. >>>!!!>>>
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arrayMap is a repository of cancer genome profiling data. Original) from primary repositories (e.g. NCBI GEO, EBI ArrayExpress, TCGA) is re-processed and annotated for metadata. Unique visualization of the processed data allows critical evaluation of data quality and genome information. Structured metadata provides easy access to summary statistics, with a focus on copy number aberrations in cancer entities.
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Chinese Crop Germplasm Resources Information System provides germplasm resources and genetic information for crops including grains, fruits, vegetables, oilseeds, and fibers. The data includes crop fingerprint and DNA sequence data.
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The Autism Chromosome Rearrangement Database is a collection of hand curated breakpoints and other genomic features, related to autism, taken from publicly available literature: databases and unpublished data. The database is continuously updated with information from in-house experimental data as well as data from published research studies.
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Chinese Virtual Herbarium is online access to herbarium specimens and botanical information in China.
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The ISSAID website gathers resources related to the systemic autoinflammatory diseases in order to facilitate contacts between interested physicians and researchers.
The website provides support to share and rapidly disseminate information, thoughts, feelings and experiences to improve the quality of life of patients and families affected by systemic autoinflammatory diseases, and promote advances in the search for causes and cures.
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The Restriction Enzyme Database is a collection of information about restriction enzymes, methylases, the microorganisms from which they have been isolated, recognition sequences, cleavage sites, methylation specificity, the commercial availability of the enzymes, and references - both published and unpublished observations (dating back to 1952). REBASE is updated daily and is constantly expanding.
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A database for plant breeders and researchers to combine, visualize, and interrogate the wealth of phenotype and genotype data generated by the Triticeae Coordinated Agricultural Project (TCAP).
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The NIH 3D Print Exchange (the “Exchange”) is an open, comprehensive, and interactive website for searching, browsing, downloading, and sharing biomedical 3D print files, modeling tutorials, and educational material. "Biomedical" includes models of cells, bacteria, or viruses, molecules like proteins or DNA, and anatomical models of organs, tissue, and body parts.
The NIH 3D Print Exchange provides models in formats that are readily compatible with 3D printers, and offers a unique set of tools to create and share 3D-printable models related to biomedical science.
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Data catalogue and repository for New Zealand's Biological Heritage National Science Challenge
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Welcome to the Animal Genome Size Database, Release 2.0, a comprehensive catalogue of animal genome size data.
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>>>!!!<<< 29.01.2020: Gallus.Reactome is offline >>>!!!<<<
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<<<!!!<<< The page is no longer available.
This database was already retired, and on this page users could find information on how to search and use these sequences. dbSTS was an NCBI resource that contained sequence data for short genomic landmark sequences or Sequence Tagged Sites. STS sequences are incorporated into the STS Division of GenBank. >>>!!!>>>
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The Protein database is a collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB. Protein sequences are the fundamental determinants of biological structure and function.
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The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information
- Current projects
- EOSC FAIR-IMPACT
- re3data COREF
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To the extent possible under law,
re3data.org
has waived all copyright and related or neighboring rights to
the database entries of re3data.org.
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Except where otherwise noted, content on this site is licensed under a
Creative Commons Attribution 4.0 International License
.
- Cite this service: re3data.org - Registry of Research Data Repositories. https://doi.org/10.17616/R3D last accessed: 2024-06-05
