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Found 149 result(s)
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It is an interactive website offering access to genome sequence data from a variety of vertebrate and invertebrate species and major model organisms, integrated with a large collection of aligned annotations. The Browser is a graphical viewer optimized to support fast interactive performance and is an open-source, web-based tool suite built on top of a MySQL database for rapid visualization, examination, and querying of the data at many levels.
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The Cancer Genome Atlas (TCGA) Data Portal provides a platform for researchers to search, download, and analyze data sets generated by TCGA. It contains clinical information, genomic characterization data, and high level sequence analysis of the tumor genomes.
The Data Coordinating Center (DCC) is the central provider of TCGA data. The DCC standardizes data formats and validates submitted data.
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<<<!!!<<< NCBI has retired the Probe Database >>>!!!>>>
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The Intermediate Filament Database will function as a continuously updated review of the intermediate filament field and it is hoped that users will contribute to the development and expansion of the database on a regular basis. Contributions may include novel variants, new patients with previously discovered sequence and allelic variants. Suggestions on ways to improve the database are also welcome.
Subject(s)
- Plant Breeding
- Natural Sciences
- Plant Cultivation
- Biological and Biomimetic Chemistry
- Agriculture, Forestry, Horticulture and Veterinary Medicine
- Agriculture, Forestry, Horticulture and Veterinary Medicine
- Life Sciences
- Biological Chemistry and Food Chemistry
- Chemistry
- Plant Biochemistry and Biophysics
- Plant Sciences
- Biology
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<<<!!!<<< This repository is no longer available. >>>!!!>>>
Database platform for cotton expressed sequence tag (EST)-related information, covering assembled contigs, function annotation, analysis of GO and KEGG, SNP, miRNA, SSR-related marker information.
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<<<!!!<<< The repository is no longer available. 2019-12-02: no more access to EcoGene >>>!!!<<<
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<<<!!!<<< The PEP database (TBestDB)--Defunct as of 2017-04 >>>!!!>>>
https://megasun.bch.umontreal.ca/pepdb/pepdb.html
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FungiDB belongs to the EuPathDB family of databases and is an integrated genomic and functional genomic database for the kingdom Fungi. FungiDB was first released in early 2011 as a collaborative project between EuPathDB and the group of Jason Stajich (University of California, Riverside). At the end of 2015, FungiDB was integrated into the EuPathDB bioinformatic resource center. FungiDB integrates whole genome sequence and annotation and also includes experimental and environmental isolate sequence data. The database includes comparative genomics, analysis of gene expression, and supplemental bioinformatics analyses and a web interface for data-mining.
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Genomic Expression Archive (GEA) is a public database of functional genomics data such as gene expression, epigenetics and genotyping SNP array. Both microarray- and sequence-based data are accepted in the MAGE-TAB format in compliance with MIAME and MINSEQE guidelines, respectively. GEA issues accession numbers, E-GEAD-n to experiment and A-GEAD-n to array design.
Data exchange between GEA and EBI ArrayExpress is planned.
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BsubCyc is a model-organism database for the bacterium Bacillus subtilis and is based on the updated B. subtilis 168 genome sequence and annotation published by Barbe et al. in 2009. Gene function annotations are being updated when new literature is available.
Subscriptions are now required to access BsubCyc. For more information on obtaining a subscription, click here: http://www.phoenixbioinformatics.org/biocyc/subscriptions.html
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BacMap is a picture atlas of annotated bacterial genomes. It is an interactive visual database containing hundreds of fully labeled, zoomable, and searchable maps of bacterial genomes.
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The Hymenoptera Genome Database is a genome informatics resource that supports the research of insects of the order Hymenoptera (e.g. bees, wasps, ants). HGD provides tools for data mining (HymenopteraMine), sequence searching (BLAST), genome browsing (JBrowse), genome annotation (Apollo) and data download.
Available through the navigation bar on the HGD Home page are the archives Ant Genomes Portal, BeeBase, and NasoniaBase which will not be updated.
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<<<!!!<<< GSS sequences are now being merged into the NCBI Nucleotide database >>>!!!>>>
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The goals of FMGP are to:
(i) sequence complete mitochondrial genomes from all major fungal lineages,
(ii) infer a robust fungal phylogeny,
(iii) define the origin of the fungi, their protistan ancestors, and their specific phylogenetic link to the animals,
(iv) investigate mitochondrial gene expression, introns, RNAse P RNA structures, mobile elements.
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The Genome Warehouse (GWH) is a public repository housing genome-scale data for a wide range of species and delivering a series of web services for genome data submission, storage, release and sharing.
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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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<<<!!!<<< Effective May 2024, NCBI's Assembly resource will no longer be available. NCBI Assembly data can now be found on the NCBI Datasets genome pages. https://www.re3data.org/repository/r3d100014298 >>>!!!>>>
A database providing information on the structure of assembled genomes, assembly names and other meta-data, statistical reports, and links to genomic sequence data.
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JASPAR is the leading open-access database of matrix profiles describing the DNA-binding patterns of transcription factors and other proteins interacting with DNA in a sequence-specific manner.
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PHI-base is a web-accessible database that catalogues experimentally verified pathogenicity, virulence and effector genes from fungal, Oomycete and bacterial pathogens, which infect animal, plant, fungal and insect hosts. PHI-base is therfore an invaluable resource in the discovery of genes in medically and agronomically important pathogens, which may be potential targets for chemical intervention. In collaboration with the FRAC team, PHI-base also includes antifungal compounds and their target genes.
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<<<!!!<<< This repository is no longer available >>>!!!>>>
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The Conserved Domain Database is a resource for the annotation of functional units in proteins. Its collection of domain models includes a set curated by NCBI, which utilizes 3D structure to provide insights into sequence/structure/function relationships
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The following databases are maintained at IAA-ULB: Nuclear Database (BRUSLIB - A collection of nuclear data (masses, fission barriers, E1 strength functions, nuclear level densities, partition functions, reaction rates) of interest for nuclear astrophysics, stellar evolution and nucleosynthesis), Nuclear Network Generator NetGen (A tool for generating nuclear-reaction rates on user-defined networks), NACRE II (An update of the Nuclear Astrophysics Compilation of Reaction Rates (NACRE) including the evaluation of 34 reactions on stable targets with mass numbers A<16), The Ninth Catalogue of Orbits of Spectroscopic Binaries (SB9), The Henize sample of S stars, The radial-velocity monitoring of barium and S stars, Molecular linelist (Molecular linelists for stellar spectra), and Stellar models (Pre-main-sequence and super-AGB phases).
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<<<!!!<<< This repository is no longer open to the public !!! >>>!!!>>>
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NAGRP Blast Center aggregates various sequence databases and makes them accessible via its website.
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NCBI Virus is a community portal for viral sequence data from RefSeq, GenBank and other NCBI repositories. To find, retrieve and analyze data, choose one of the offered options.
- Current projects
- EOSC FAIR-IMPACT
- re3data COREF
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- Cite this service: re3data.org - Registry of Research Data Repositories. https://doi.org/10.17616/R3D last accessed: 2024-04-20
