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Found 8 result(s)

PMN

Plant Metabolic Network

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The Plant Metabolic Network (PMN) provides a broad network of plant metabolic pathway databases that contain curated information from the literature and computational analyses about the genes, enzymes, compounds, reactions, and pathways involved in primary and secondary metabolism in plants. The PMN currently houses one multi-species reference database called PlantCyc and 22 species/taxon-specific databases.

AceView

AceView genes

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AceView provides a curated, comprehensive and non-redundant sequence representation of all public mRNA sequences (mRNAs from GenBank or RefSeq, and single pass cDNA sequences from dbEST and Trace). These experimental cDNA sequences are first co-aligned on the genome then clustered into a minimal number of alternative transcript variants and grouped into genes. Using exhaustively and with high quality standards the available cDNA sequences evidences the beauty and complexity of mammals’ transcriptome, and the relative simplicity of the nematode and plant transcriptomes. Genes are classified according to their inferred coding potential; many presumably non-coding genes are discovered. Genes are named by Entrez Gene names when available, else by AceView gene names, stable from release to release. Alternative features (promoters, introns and exons, polyadenylation signals) and coding potential, including motifs, domains, and homologies are annotated in depth; tissues where expression has been observed are listed in order of representation; diseases, phenotypes, pathways, functions, localization or interactions are annotated by mining selected sources, in particular PubMed, GAD and Entrez Gene, and also by performing manual annotation, especially in the worm. In this way, both the anatomy and physiology of the experimentally cDNA supported human, mouse and nematode genes are thoroughly annotated.

Saccharomyces Genome Database

SGD

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The Saccharomyces Genome Database (SGD) provides comprehensive integrated biological information for the budding yeast Saccharomyces cerevisiae along with search and analysis tools to explore these data, enabling the discovery of functional relationships between sequence and gene products in fungi and higher organisms.

Mediterranean Germplasm Database (MGD)

Mediterranean Germplasm Genebank (MGG)

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The Mediterranean Germplasm Database (MGD) is the digital twin of the agri-food plant seed collection (Mediterranean Germplasm Genebank - MGG) maintained at the Institute of Biosciences and BioResources (IBBR) of the Italian National Research Council (CNR) in Bari, Italy. Overall, the collection preserves more than 59,000 accessions of 870 species from 203 genera and 39 families (mainly Poaceae, Fabaceae, Solanaceae, Brassicaceae, Asteraceae, etc.). Over 13,000 samples have been directly collected through time and georeferenced by IBBR exploration teams, while others have been acquired from other Institutions through exchange activities. The main objective of MGG is the preservation of genetic resources of herbaceous plants of interest for the Mediterranean agriculture. Particular attention is dedicated to specific segments of plant genetic resources, such as local varieties (including "typical products") or endangered agro-ecotypes, wild relatives of crops and plants potentially useful for the extraction of bioactive or biotechnological compounds. The main commitments of MGG since 1970 are: (i) the collection, conservation and distribution of PGR; (ii) the characterization and evaluation of PGRs and the analysis of their genetic structure; (ii) the selection and pre-breeding of PGR, and the recognition of useful genes.

Atlas of Living Australia

ALA

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The Atlas of Living Australia (ALA) combines and provides scientifically collected data from a wide range of sources such as museums, herbaria, community groups, government departments, individuals and universities. Data records consist of images, literature, molecular DNA data, identification keys, species interaction data, species profile data, nomenclature, source data, conservation indicators, and spatial data.

Sequence Read Archive

SRA

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The Sequence Read Archive stores the raw sequencing data from such sequencing platforms as the Roche 454 GS System, the Illumina Genome Analyzer, the Applied Biosystems SOLiD System, the Helicos Heliscope, and the Complete Genomics. It archives the sequencing data associated with RNA-Seq, ChIP-Seq, Genomic and Transcriptomic assemblies, and 16S ribosomal RNA data.

The Global Proteome Machine

GPM

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The Global Proteome Machine (GPM) is a protein identification database. This data repository allows users to post and compare results. GPM's data is provided by contributors like The Informatics Factory, University of Michigan, and Pacific Northwestern National Laboratories. The GPM searchable databases are: GPMDB, pSYT, SNAP, MRM, PEPTIDE and HOT.

Cassavabase

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