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Found 191 result(s)

Biofilms Structural Database

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The Biofilms Structural Database contains information on different protein structures involved in biofilm formation, development, and virulence.

Human Autophagy Database

HADb

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HADb provides a complete and an up-to-date list of human genes and proteins involved directly or indirectly in autophagy as described in literature.

Government of Alberta Open Datasets

Alberta Open Data

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The open government portal is a collection of datasets and publications by government departments and agencies. The public can use and access this data freely to learn more about how government works, carry out research or build web apps. The portal functions as both a library for current publications and as an archive for old publications which have historic value.

4DGenome

Chromatin Interaction 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.

Analysis and Policy Observatory

APO

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The Analysis & Policy Observatory is an award-winning research collection and information service curating key resources to support evidence-informed policy and practice. Open access public policy and practice repository for grey literature and data.

Cassavabase

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Breeding, molecular, genetics and genomics data on cassava (Manihot esculenta) and wild relatives

Database of Genomic Variants

DGV

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The objective of the Database of Genomic Variants is to provide a comprehensive summary of structural variation in the human genome. We define structural variation as genomic alterations that involve segments of DNA that are larger than >1kb. Now we also annotate InDels in 100bp-1kb range. The content of the database is only representing structural variation identified in healthy control samples. The Database of Genomic Variants provides a useful catalog of control data for studies aiming to correlate genomic variation with phenotypic data. The database is continuously updated with new data from peer reviewed research studies. We always welcome suggestions and comments regarding the database from the research community.

LIPID MAPS

LIPID Metabolites And Pathways Strategy

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Tthe Lipidomics Gateway - a free, comprehensive website for researchers interested in lipid biology, provided by the LIPID MAPS (Lipid Metabolites and Pathways Strategy) Consortium. The LIPID MAPS Lipidomics Gateway provides a rich collection of information and resources to help you stay abreast of the latest developments in this rapidly expanding field. LIPID Metabolites And Pathways Strategy (LIPID MAPS®) is a multi-institutional effort created in 2003 to identify and quantitate, using a systems biology approach and sophisticated mass spectrometers, all of the major — and many minor — lipid species in mammalian cells, as well as to quantitate the changes in these species in response to perturbation. The ultimate goal of our research is to better understand lipid metabolism and the active role lipids play in diabetes, stroke, cancer, arthritis, Alzheimer's and other lipid-based diseases in order to facilitate development of more effective treatments. Since our inception, we have made great strides toward defining the "lipidome" (an inventory of the thousands of individual lipid molecular species) in the mouse macrophage. We have also worked to make lipid analysis easier and more accessible for the broader scientific community and to advance a robust research infrastructure for the international research community. We share new lipidomics findings and methods, hold annual meetings open to all interested investigators, and are exploring joint efforts to extend the use of these powerful new methods to new applications

miRBase

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The miRBase database is a searchable database of published miRNA sequences and annotation. Each entry in the miRBase Sequence database represents a predicted hairpin portion of a miRNA transcript (termed mir in the database), with information on the location and sequence of the mature miRNA sequence (termed miR). Both hairpin and mature sequences are available for searching and browsing, and entries can also be retrieved by name, keyword, references and annotation. All sequence and annotation data are also available for download. The miRBase Registry provides miRNA gene hunters with unique names for novel miRNA genes prior to publication of results.

The Population Research in Sexual Minority Health Data Archive

PRISM

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The Population Research in Sexual Minority Health (PRISM) Data Archive is a collaborative project of the Center for Population Research in LGBT Health and the Inter-university Consortium for Political and Social Research (ICPSR). The PRISM data archive project is a primary initiative of the Center. PRISM makes high quality datasets useful for analysis of issues affecting sexual and gender minority populations in the United States available researchers, scholars, educators and practitioners.

CLAE

Characterized Lignocellulose-Active Proteins of Fungal Origin

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<<<!!!<<< This repository is no longer available. >>>!!!>>> Formerly known as mycoCLAP, CLAE is a curated database of Characterized Lignocellulose-Active Enzymes

Antimicrobial Peptide Database

APD

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The Antimicrobial Peptide Database (APD) was originally created by a graduate student, Zhe Wang, as his master's thesis in the laboratory of Dr. Guangshun Wang. The project was initiated in 2002 and the first version of the database was open to the public in August 2003. It contained 525 peptide entries, which can be searched in multiple ways, including APD ID, peptide name, amino acid sequence, original location, PDB ID, structure, methods for structural determination, peptide length, charge, hydrophobic content, antibacterial, antifungal, antiviral, anticancer, and hemolytic activity. Some results of this bioinformatics tool were reported in the 2004 database paper. The peptide data stored in the APD were gleaned from the literature (PubMed, PDB, Google, and Swiss-Prot) manually in over a decade.

BacDive

Bacterial Diversity Metadatabase

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BacDive is a bacterial metadatabase that provides strain-linked information about bacterial and archaeal biodiversity. The database is a resource for different kind of phenotypic data like taxonomy, morphology, physiology, environment and molecular-biology. The majority of data is manually annotated and curated. With the release in April 2019 BacDive offers information for 80,584 strains. The database is hosted by the Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures GmbH and is part of de.NBI the German Network for Bioinformatics Infrastructure.

Ontology Lookup Service

OLS

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The Ontology Lookup Service (OLS) is a repository for biomedical ontologies that aims to provide a single point of access to the latest ontology versions. The user can browse the ontologies through the website as well as programmatically via the OLS API. The OLS provides a web service interface to query multiple ontologies from a single location with a unified output format.The OLS can integrate any ontology available in the Open Biomedical Ontology (OBO) format. The OLS is an open source project hosted on Google Code.

CIARD Ring

CIARDRING

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The CiardRING is a global directory of web-based information services and datasets for agricultural research for development (ARD). It is the principal tool created through the CIARD initiative to allow information providers to register their services and datasets in various categories and so facilitate the discovery of sources of agriculture-related information across the world. The RING aims to provide an infrastructure to improve the accessibility of the outputs of agricultural research and of information relevant to agriculture.

AmoebaDB

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AmoebaDB belongs to the EuPathDB family of databases and is an integrated genomic and functional genomic database for Entamoeba and Acanthamoeba parasites. In its first iteration (released in early 2010), AmoebaDB contains the genomes of three Entamoeba species (see below). AmoebaDB integrates whole genome sequence and annotation and will rapidly expand to include experimental data and environmental isolate sequences provided by community researchers . The database includes supplemental bioinformatics analyses and a web interface for data-mining.

DOE Data Explorer

DDE

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The DOE Data Explorer (DDE) is an information tool to help you locate DOE's collections of data and non-text information and, at the same time, retrieve individual datasets within some of those collections. It includes collection citations prepared by the Office of Scientific and Technical Information, as well as citations for individual datasets submitted from DOE Data Centers and other organizations.

FlyReactome

a curated knowledgebase of drosophila melanogaster pathways

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<<<!!!<<< This repository is no longer available. This record is out dated >>>!!!>>>- eir fields, maintained by the FlyReactome staff.

Portal de Datos Genómicos del SNDG

Sistema Nacional de Datos Genómicos - Portal de datos

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<<<!!!<<< This repository is no longer available. >>>!!!>>>

Open Government Data Platform India

OGD

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The Portal is intended to be used as catalog of datasets published by ministries/ department/ organizations of Government of India for public use, in order to enhance transparency in the functioning of the Government as well as to make innovative visualization of dataset. This National Data Portal is being updated frequently to make it as accessible as possible and completely accessible to all irrespective of physical challenges or technology.

TreeGenes

A forest tree genome database

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TreeGenes is a genomic, phenotypic, and environmental data resource for forest tree species. The TreeGenes database and Dendrome project provide custom informatics tools to manage the flood of information.The database contains several curated modules that support the storage of data and provide the foundation for web-based searches and visualization tools. GMOD GUI tools such as CMAP for genetic maps and GBrowse for genome and transcriptome assemblies are implemented here. A sample tracking system, known as the Forest Tree Genetic Stock Center, sits at the forefront of most large-scale projects. Barcode identifiers assigned to the trees during sample collection are maintained in the database to identify an individual through DNA extraction, resequencing, genotyping and phenotyping. DiversiTree, a user-friendly desktop-style interface, queries the TreeGenes database and is designed for bulk retrieval of resequencing data. CartograTree combines geo-referenced individuals with relevant ecological and trait databases in a user-friendly map-based interface. ---- The Conifer Genome Network (CGN) is a virtual nexus for researchers working in conifer genomics. The CGN web site is maintained by the Dendrome Project at the University of California, Davis.

The Human Protein Atlas

HPA

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The Swedish Human Protein Atlas project has been set up to allow for a systematic exploration of the human proteome using Antibody-Based Proteomics. This is accomplished by combining high-throughput generation of affinity-purified antibodies with protein profiling in a multitude of tissues and cells assembled in tissue microarrays. Confocal microscopy analysis using human cell lines is performed for more detailed protein localization. The program hosts the Human Protein Atlas portal with expression profiles of human proteins in tissues and cells. The main objective of the resource centre is to produce specific antibodies to human target proteins using a high-throughput production method involving the cloning and protein expression of Protein Epitope Signature Tags (PrESTs). After purification, the antibodies are used to study expression profiles in cells and tissues and for functional analysis of the corresponding proteins in a wide range of platforms.

The Cell Image Library

The Cell

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This library is a public and easily accessible resource database of images, videos, and animations of cells, capturing a wide diversity of organisms, cell types, and cellular processes. The Cell Image Library has been merged with "Cell Centered Database" in 2017. The purpose of the database is to advance research on cellular activity, with the ultimate goal of improving human health.

RCSB Protein Data Bank

RCSB PDB

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The Protein Data Bank (PDB) archive is the single worldwide repository of information about the 3D structures of large biological molecules, including proteins and nucleic acids. These are the molecules of life that are found in all organisms including bacteria, yeast, plants, flies, other animals, and humans. Understanding the shape of a molecule helps to understand how it works. This knowledge can be used to help deduce a structure's role in human health and disease, and in drug development. The structures in the archive range from tiny proteins and bits of DNA to complex molecular machines like the ribosome.

GUDMAP

GenitoUrinary Development Molecular Anatomy Project

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The GenitoUrinary Development Molecular Anatomy Project (GUDMAP) is a consortium of laboratories working to provide the scientific and medical community with tools to facilitate research. The key components are: (1) a molecular atlas of gene expression for the developing organs of the GenitoUrinary (GU) tract; (2) a high resolution molecular anatomy that highlights development of the GU system; (3) mouse strains to facilitate developmental and functional studies within the GU system; (4) tutorials describing GU organogenesis; and (5) rapid access to primary data via the GUDMAP database.