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Found 49 result(s)

UPF Digital Repository

e-Repositori upf

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The Institutional repository collects, disseminates and preserves in digital form, the intellectual output that results from the academic and research activity of the Universitat Pompeu Fabra (UPF). Its Purpose is to Increase the impact of research done at the UPF and STIs intellectual memory.

PubChem

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Pubchem contains 3 databases. 1. PubChem BioAssay: The PubChem BioAssay Database contains bioactivity screens of chemical substances described in PubChem Substance. It provides searchable descriptions of each bioassay, including descriptions of the conditions and readouts specific to that screening procedure. 2. PubChem Compound: The PubChem Compound Database contains validated chemical depiction information provided to describe substances in PubChem Substance. Structures stored within PubChem Compounds are pre-clustered and cross-referenced by identity and similarity groups. 3. PubChem Substance. The PubChem Substance Database contains descriptions of samples, from a variety of sources, and links to biological screening results that are available in PubChem BioAssay. If the chemical contents of a sample are known, the description includes links to PubChem Compound.

Open Tree of Life

Tree of Life - Evolution

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The tree of life links all biodiversity through a shared evolutionary history. This project will produce the first online, comprehensive first-draft tree of all 1.8 million named species, accessible to both the public and scientific communities. Assembly of the tree will incorporate previously-published results, with strong collaborations between computational and empirical biologists to develop, test and improve methods of data synthesis. This initial tree of life will not be static; instead, we will develop tools for scientists to update and revise the tree as new data come in. Early release of the tree and tools will motivate data sharing and facilitate ongoing synthesis of knowledge.

Kikapu

University of the Western Cape Institutional Research Data Respository

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The University of the Western Cape (UWC) uses Figshare for Institutions for their institutional research data repository. It is called Kikapu, and serves as a repository for storing and disseminating research data.

ETH Zürich Research Collection

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The Research Collection is ETH Zurich's publication platform. It unites the functions of a university bibliography, an open access repository and a research data repository within one platform. Researchers who are affiliated with ETH Zurich, the Swiss Federal Institute of Technology, may deposit research data from all domains. They can publish data as a standalone publication, publish it as supplementary material for an article, dissertation or another text, share it with colleagues or a research group, or deposit it for archiving purposes. Research-data-specific features include flexible access rights settings, DOI registration and a DOI preview workflow, content previews for zip- and tar-containers, as well as download statistics and altmetrics for published data. All data uploaded to the Research Collection are also transferred to the ETH Data Archive, ETH Zurich’s long-term archive.

NCBI Gene

Gene

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The Gene database provides detailed information for known and predicted genes defined by nucleotide sequence or map position. Gene supplies gene-specific connections in the nexus of map, sequence, expression, structure, function, citation, and homology data. Unique identifiers are assigned to genes with defining sequences, genes with known map positions, and genes inferred from phenotypic information. These gene identifiers are used throughout NCBI's databases and tracked through updates of annotation. Gene includes genomes represented by NCBI Reference Sequences (or RefSeqs) and is integrated for indexing and query and retrieval from NCBI's Entrez and E-Utilities systems.

Dipòsit Digital de la Universitat de Barcelona Dades

DD Dipòsit Digital

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The Universitat de Barcelona Digital Repository is an institutional resource containing open-access digital versions of publications related to the teaching, research and institutional activities of the UB's teaching staff and other members of the university community, including research data.

PANGAEA

Data Publisher for Earth and Environmental Science

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PANGAEA - Data Publisher for Earth & Environmental Sciences has an almost 30-year history as an open-access library for archiving, publishing, and disseminating georeferenced data from the Earth, environmental, and biodiversity sciences. Originally evolving from a database for sediment cores, it is operated as a joint facility of the Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Research (AWI) and the Center for Marine Environmental Sciences (MARUM) at the University of Bremen. PANGAEA holds a mandate from the World Meteorological Organization (WMO) and is accredited as a World Radiation Monitoring Center (WRMC). It was further accredited as a World Data Center by the International Council for Science (ICS) in 2001 and has been certified with the Core Trust Seal since 2019. The successful cooperation between PANGAEA and the publishing industry along with the correspondent technical implementation enables the cross-referencing of scientific publications and datasets archived as supplements to these publications. PANGAEA is the recommended data repository of numerous international scientific journals.

Bugwood Image Database System

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bugwood.org is the host website of the Center for Invasive Species and Ecosystem Health at the University of Georgia (Formerly: Bugwood Network). The Center aims to develop, consolidate and disseminate information and programmes focused on invasive species, forest health, natural resources and agricultural management through technology development, programmes implementation, training, applied research and public awareness at state, regional, national and international levels. The site gives details of its products (Bugwood Image Database; Early Detection and Distribution Mapping and Bugwoodwiki). Details of its projects, services and personnel are provided. Users can also access image databases on Forestry, Insects, IPM, Invasive Species, Forest Pests, weed and Bark Beetle.

The Monarch Initiative

Monarch Initiative

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As with most biomedical databases, the first step is to identify relevant data from the research community. The Monarch Initiative is focused primarily on phenotype-related resources. We bring in data associated with those phenotypes so that our users can begin to make connections among other biological entities of interest. We import data from a variety of data sources. With many resources integrated into a single database, we can join across the various data sources to produce integrated views. We have started with the big players including ClinVar and OMIM, but are equally interested in boutique databases. You can learn more about the sources of data that populate our system from our data sources page https://monarchinitiative.org/about/sources.

Integrated Relational Enzyme database

IntEnz

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IntEnz contains the recommendation of the Nomenclature Committee of the International Union of Biochemistry and Molecular Biology on the nomenclature and classification of enzyme-catalyzed reactions. Users can browse by enzyme classification or use advanced search options to search enzymes by class, subclass and sub-subclass information.

Golm Metabolome Database

GMD

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The Golm Metabolome Database (GMD) facilitates the search for and dissemination of reference mass spectra from biologically active metabolites quantified using gas chromatography (GC) coupled to mass spectrometry (MS)

Cancer GenomeAtlas Data Portal

Cancer Genome Atlas Data Portal

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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.

jPOSTrepo

Japan ProteOme STandard Repository/Database

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jPOSTrepo (Japan ProteOme STandard Repository) is a repository of sharing MS raw/processed data. It consists of a high-speed file upload process, flexible file management system and easy-to-use interfaces. Users can release their "raw/processed" data via this site with a unique identifier number for the paper publication. Users also can suspend (or "embargo") their data until their paper is published. The file transfer from users’ computer to our repository server is very fast (roughly ten times faster than usual file transfer) and uses only web browsers – it does not require installing any additional software.

NCBI Probe

Probe

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<<<!!!<<< NCBI has retired the Probe Database >>>!!!>>>

NCBI dbGaP

DataBase of Genotypes And Phenotypes

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The NCBI database of Genotypes and Phenotypes archives and distributes the results of studies that have investigated the interaction of genotype and phenotype, including genome-wide association studies, medical sequencing, molecular diagnostic assays, and association between genotype and non-clinical traits. The database provides summaries of studies, the contents of measured variables, and original study document text. dbGaP provides two types of access for users, open and controlled. Through the controlled access, users may access individual-level data such as phenotypic data tables and genotypes.

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.

UK Polar Data Centre

UK PDC

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The UK Polar Data Centre (UK PDC) is the focal point for Arctic and Antarctic environmental data management in the UK. Part of the Natural Environmental Research Council’s (NERC) network of environmental data centres and based at the British Antarctic Survey, it coordinates the management of polar data from UK-funded research and supports researchers in complying with national and international data legislation and policy.

Swedish National Data Service

SND

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Swedish National Data Service (SND) is a research data infrastructure designed to assist researchers in preserving, maintaining, and disseminating research data in a secure and sustainable manner. The SND Search function makes it easy to find, use, and cite research data from a variety of scientific disciplines. Together with an extensive network of almost 40 Swedish higher education institutions and other research organisations, SND works for increased access to research data, nationally as well as internationally.

NCBI HomoloGene

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The HomoloGene database provides a system for the automated detection of homologs among annotated genes of genomes across multiple species. These homologs are fully documented and organized by homology group. HomoloGene processing uses proteins from input organisms to compare and sequence homologs, mapping back to corresponding DNA sequences.

Centers for Disease Control and Prevention, Data & Statistics

CDC

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CDC.gov is the Centers for Disease Control and Prevention primary online communication channel. CDC.gov provides users with credible, reliable health information on Data and Statistics, Diseases and Conditions, Emergencies and Disasters, Environmental Health, Healthy Living, Injury, Violence and Safety,Life Stages and Populations, Travelers' Health, Workplace Safety and Health

BioVel

Biodiversity Virtual e-Laboratory

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<<<!!!<<< This repository is no longer available. >>>!!!>>> BioVeL is a virtual e-laboratory that supports research on biodiversity issues using large amounts of data from cross-disciplinary sources. BioVeL supports the development and use of workflows to process data. It offers the possibility to either use already made workflows or create own. BioVeL workflows are stored in MyExperiment - Biovel Group http://www.myexperiment.org/groups/643/content. They are underpinned by a range of analytical and data processing functions (generally provided as Web Services or R scripts) to support common biodiversity analysis tasks. You can find the Web Services catalogued in the BiodiversityCatalogue.

Pfam Protein Families

Pfam

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The Pfam database is a large collection of protein families, each represented by multiple sequence alignments and hidden Markov models (HMMs). !!! Powering down the Pfam website On October 5th, redirecting the traffic from Pfam (pfam.xfam.org) to InterPro (www.ebi.ac.uk/interpro) will start. The Pfam website will be available at legacy.pfam.xfam.org until January 2023, when it will be decommissioned. You can read more about the sunset period in the blog post (https://xfam.wordpress.com/2022/08/04/pfam-website-decommission/). !!!

Edinburgh DataShare

DataShare

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Edinburgh DataShare is a digital repository of research data produced at the University of Edinburgh, hosted by the Research Data Service in Information Services. Edinburgh University researchers who have produced research data associated with an existing or forthcoming publication, or which has potential use for other researchers, are invited to upload their dataset for sharing and safekeeping. A persistent identifier and suggested citation will be provided.

Gene Expression Omnibus

GEO

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Gene Expression Omnibus: a public functional genomics data repository supporting MIAME-compliant data submissions. Array- and sequence-based data are accepted. Tools are provided to help users query and download experiments and curated gene expression profiles.