BASES DE DATOS

» ÁCIDOS NUCLÉICOS
    Bases generales ADN

    DNA codificante y no codificante
    Estructura de genes

    Reguladores de la transcripción
    Elementos transponibles
    RNA    
    Sondas e iniciadores

» PROTEÍNAS
    Bases generales proteínas
    Propiedades de las proteínas
    Localización subcelular
    Motivos y centros activos
    Familias de proteínas
    Interacciones de proteínas

» GENOMAS
    Bases generales genomas
    Tamaño
    Mapas y marcadores
    Ontología, anotación, nomenclatura
    Uso de codones, códigos genéticos

» TRANSCRIPTOMA
    Microarrays
    ESTs
    SAGE y similares
    Hibridación in situ
» PROTEOMA

» METABOLOMA
        Enzimas
     Rutas metabólicas
     Rutas de señalización
        Interacciones

» ESTRUCTURA
    Pequeñas moléculas
    Carbohidratos
    Ácidos nucléicos
    Proteínas
    Lípidos
 
» ORGANELOS
    Mitocondrias
    Plastos
    Otros

» TAXONOMÍA

» BIOINFORMÁTICA

» MUTANTES

» PATENTES

» OTRAS



INICIO


















ÁCIDOS NUCLÉICOS

ARRIBA Bases generales de ADN INICIO

DDBJ - DNA Data Bank of Japan

An annotated collection of all publicly available nucleotide and protein sequences
EMBL Nucleotide Sequence Database Comprehensive public domain nucleotide sequence data

GenBank®

An annotated collection of all publicly available nucleotide and protein sequences
BioMed Central Databases
EBI (European Bioinformatics Institute)A large resource of information, including bioinformatics, genomics, molecular biology and biotechnology.

ARRIBA DNA codificante y no codificante INICIO

CORG - A database for COmparative Regulatory Genomics

Conserved non-coding sequence blocks

DiProDB

Database for dinucleotide properties
VectorDB Characterization and classification of nucleic acid vectors
UniVec Vector sequences, adapters, linkers and primers used in DNA cloning

ARRIBA Estructura de genes INICIO
ARTADEdb Transcriptional structures elucidated based on tiling arrays in Arabidopsis
ASDB - Alternative Splicing Database Protein products and expression patterns of alternatively-spliced genes

ARRIBA Reguladores de la transcripción INICIO
ECRbase Evolutionary conserved regions, promoters, and transcription factor binding sites
ABS Experimentally verified orthologous transcription factor binding sites
ACTIVITY Functional DNA/RNA site activity

ARRIBA Elementos transponibles INICIO
ACLAME - A Classification of Mobile genetic Elements A classification of genetic mobile elements
GyDB Gypsy database of mobile genetic elements
RetrOryza LTR-retrotransposons in rice
TIGR plant repeat database Classification of repetitive sequences in plant genomes
L1Base Functional annotation and prediction of LINE-1 elements
Mobile group II introns database Database for mobile group II introns

ARRIBA RNA INICIO
16S and 23S Ribosomal RNA Mutation Database 16S and 23S ribosomal RNA mutations
3D rRNA modification maps Locations of modified rRNA nucleotides within the 3D structure of the ribosome
5S Ribosomal RNA Database 5S rRNA sequences

ARRIBA     Sondas e iniciadores INICIO
AOBase Antisense oligonucleotide selection and design
MPDB Information on synthetic oligonucleotides proven useful as primers or probes
Molecular Probe Database Synthetic oligonucleotides, probes and PCR primers


PROTEÍNAS

ARRIBA Bases generales de proteínas INICIO
UniProt Universal Protein knowledgebase, combined information from Swiss-Prot, TrEMBL, and PIR
PIR - Protein Information Resource PIR protein sequence database, has been merged into UniProt Knowledgebase and UniParc
NCBI Protein database All protein sequences: translated from GenBank and imported from other protein databases

ARRIBA     Propiedades de las proteínas INICIO
AAindex Physicochemical and biological properties of amino acids
PFD - Protein Folding Database Experimental data on protein folding
PPD Experimentally-determined protein pKa values
REFOLD Experimental data on protein refolding and purification

ARRIBA     Localización subcelular INICIO
DBSubLoc - Database of protein Subcellular Localization Database of protein subcellular localization
eSLDB - eukaryotic Subcellular Localization database Subcellular localization of entire eukaryotic proteomes
MiCroKit Midbody, Centrosome and Kinetochore proteins

ARRIBA Motivos, centros activos INICIO
SMART Simple Modular Architecture Research Tool
ProDom Protein domain families
PROSITE Biologically-significant protein patterns and profiles
Pfam Multiple sequence alignments and hidden Markov models of common protein domains

ARRIBA     Familias de proteínas INICIO
Aminoacyl-tRNA synthetase database Aminoacyl-tRNA synthetase sequences
ARAMEMNON Arabidopsis thaliana membrane proteins and transporters
CAZy Carbohydrate-Active Enzymes database
ChromDB Chromatin-associated proteins in a broad range of organisms
Chromdb (The Plant Chromatin Database)  Contains information on the complement of chromatin proteins in plants, including their functions and molecular phylogenetic relationships, with initial emphasis on Arabidopsis and maize.

Wnt Database     

Pathways and functions of members of the wnt family of proteins.
ABCISSEABC systems : Information on Sequence Structure and Evolution
AMSDbAntimicrobial sequences db
EF-hand CaBPEF-hand calcium-binding proteins data library
ChaperoninInformation on GroEL and GroES chaperonins
cpnDBA Chaperonin Database
DnaB helicase
ESTHEREsterases and alpha/beta hydrolase enzymes
Expansins web site
FADPNRFAD-dependent pyridine nucleotide oxidoreductases
Flavodoxins
GlobinGlobin gene server
7TMEntries of 7-transmembrane G-linked receptors in UniProtKB/Swiss-Prot
GPCRDBG protein-coupled receptor db (7TM) at EMBL
HistoneHistones db
Integrinsfrom Wikipedia
Initiation factorsEntries of translation initiation factors in UniProtKB/Swiss-Prot
LGICLigand Gated Ion Channel subunit db
Voltage-gated Ion Channels
MDBMetalloprotein Site Database and Browser
MutSMutS family
PDEPhosphodiesterases
Plant Peroxidases
MEROPSPeptidase db
PatBaseP-type ATPase db
PhytochromesComputer analysis of phytochrome sequences
Familes and entries of ribosomal proteins in UniProtKB/Swiss-Prot
RNase PRibonuclease P db
SNF2SNF2 family protein resource
TC-DBTransport Classification System from Milton Saier
VDRVitamin D Nuclear Receptor

ARRIBA     Interacciones de proteínas INICIO
BindingDB Binding affinities of protein-ligand and other complexes


GENOMAS

ARRIBA     Bases generales de genomas INICIO
EBI Genomes EBI's collection of databases for the analysis of complete and unfinished viral, pro- and  eukaryotic genomes
Genome Project Database NCBI's database of large-scale genome sequencing projects
Genome Reviews Integrated view of complete genomes

ARRIBA     Tamaño del genoma INICIO

ARRIBA     Mapas y marcadores INICIO

ARRIBA     Ontología, anotación, nomenclatura INICIO
BioThesaurus A collection of gene/protein names and associated sequences
FunSimMat Gene Ontology-based functional similarity values for proteins and protein families
GO - Gene Ontology Gene ontology consortium database
GOA - Gene Ontology Annotation Assignment of gene products to the Gene Ontology (GO) resource
GOPaD The Gene Ontology Partition Database
IUBMB Nomenclature database Nomenclature of enzymes, membrane transporters, electron transport proteins and other proteins
IUPAC Nomenclature database Nomenclature of biochemical and organic compounds approved by the IUBMB-IUPAC Joint Commission
Plant Ontology database A controlled vocabulary of plant structures and growth stages
SOURCE Functional genomic resource for annotations, ontologies, and expression data

ARRIBA     Uso de codones, códigos genéticos INICIO

CUTG

Codon usage tables tabulated from GeneBank
Genetic Codes Deviations from the standard genetic codes in various organisms and organelles
Codon usage database
Transterm Sequence contexts about the stop and start codons of many species found in GenBank. TransTerm also contains codon usage data for these same species and summary statistics for the sequences analyzed. The 3' and 5' UTR flanking sequences and coding sequences for each organism are also available for searching via experimental server.
CODONTREE  A database that is able to determine the codon usage table for a set of protein coding genes; gene relationships on the basis of codon usage similarity; and compositional features of protein coding genes.
Codon Usage Tables Kazusa DNA Research Institute
Codon Usage Tables
Table of Standard Genetic Code


TRANSCRIPTOMA
4DXpress Database for cross species expression pattern comparisons

ARRIBA Microarrays INICIO
ArrayExpress Public collection of microarray gene expression data
GEO - Gene Expression Omnibus Public gene expression repository

ARRIBA ESTs INICIO
TIGR Gene Indices Non-redundant, gene-oriented clusters
CATMA - Complete Arabidopsis Transcriptome MicroArray Arabidopsis gene sequence tags

ARRIBA SAGE y similares INICIO
5'SAGE 5'-end serial analysis of gene expression

ARRIBA Hibridación in situ INICIO
BGED - Brain Gene Expression Database Brain gene expression database

ARRIBA PROTEOMA INICIO
Biodefense Proteomics Resource Center Proteomics and host-pathogen interactions for biodefense-related microorganisms
PEP: Predictions for Entire Proteomes Summarized analyses of protein sequences


METABOLOMA
ARRIBA Enzimas INICIO
Enzyme Nomenclature IUBMB Nomenclature Committee recommendations and updates
ENZYME Enzyme nomenclature and sequences 

BRENDA

The Comprehensive Enzyme Information System. Contains listings of enzyme interaction and functional data.
DSD Dehydrogenase Stereospecificity Database. A compilation of enzyme stereochemical data allowing analysis of reductase hydrogen transfer stereospecificity.
EMP Enzyme and Metabolic Pathways Database. An interaction database for enzyme and metabolic pathway reactions.

ARRIBA Rutas metabólicas INICIO
MetaCrop Biochemical pathways and enzymes in crop plants 
MetaCyc Experimentally studied metabolic pathways and enzymes from more than 1,500 organisms.
MODOMICS A database of RNA modification pathways
BioCyc Collection of Pathway/Genome Databases.
PUMA2 Metabolic analysis of complete microbial genomes
BioCarta Online maps of metabolic and signaling pathways
BioSilico Integrated access to various metabolic databases
BRITE Biomolecular Relations in Information Transmission and Expression. Molecular interactions and pathways database, part of the KEGG system
Klotho Collection and categorization of biological compounds
LIGAND Chemical compounds and reactions in biological pathways
Pathguide A listing of pathway, signal transduction and protein-protein interaction databases
Pathway Explorer A tool for visualizing high throughput expression data simultaneously with biological pathway data available from KEGG, BioCarta and GenMAPP.
   
ARRIBA Rutas de señalización INICIO
PhosPhAt Arabidopsis Protein Phosphorylation Site Database
PID NCI-Nature Pathway Interaction Database
PRRDB Pattern recognition receptors and their ligands

ARRIBA Interacciones INICIO
PathoPlant Signal transduction related to plant-pathogen interactions


ESTRUCTURA


ARRIBA Pequeñas moléculas INICIO
AANT - Amino Acid - Nucleotide interaction database Amino acid-nucleotide interaction database
ChEBI - Chemical Entities of Biological Interest Small molecules, atoms, ions and radicals of biological interest
ChemBank Structures and biological activities of small organic molecules
ChemDB 3D structures and properties of small molecules
CSD - Cambridge Structural Database Crystal structure information for organic and metal organic compounds



ARRIBA Carbohidratos INICIO
CCSD - Complex Carbohydrate Structure Database (CarbBank) Complex carbohydrate structure database
CSS - Carbohydrate Structure Suite Carbohydrate 3D structures derived from the PDB
Glycan Carbohydrate database, part of the KEGG system
GlycoMapsDB Conformational maps of disaccharides
GlycoSuiteDB N- and O-linked glycan structures and biological sources
Monosaccharide Browser Space filling Fischer projections of monosaccharides
SWEET-DB Annotated carbohydrate structure and substance information
CarbBank (The Complex Carbohydrate Structure Database) A combination of two databases with information from the proton NMR spectra of Xyloglucans and the GC-EIMS of Partially Methylated Alditol Acetates.

ARRIBA Acidos nucleicos INICIO
Greglist G-quadruplex motifs and potentially G-quadruplex regulated genes
GRSDB Quadruplex forming 'G'-rich sequences in mammalian pre-mRNA
ITS2 Predicted structures of internal transcribed spacer 2 (ITS2)
MeRNA Metal ion binding sites in RNA structures
Rfam Non-coding RNA families
NCIR  Non-standard base-base interactions in known RNA structures
NDB Nucleic acid-containing structures
NTDB Thermodynamic data for nucleic acids
RNA SSTRAND RNA secondary structure data and structural motifs
RNABase RNA-containing structures from PDB and NDB
SCOR Structural Classification of RNA. RNA structural relationships

ARRIBA Proteínas INICIO
3D-Genomics Structural annotations for complete proteomes
3DID - 3D interacting domains Domain-domain interactions in proteins with known 3D structures
ArchDB Automated classification of protein loop structures
AffinDB A database of affinity data for structurally resolved protein-ligand complexes.
ASTRAL Sequences of domains of known structure, selected subsets, and sequence-structure correspondences
BioMagResBank NMR spectroscopic data from proteins, peptides, and nucleic acids
CADB Conformation angles of protein structures, with associated crystallographic data
CATH Classification of protein domain structures
CE Combinatorial Extension method to compute and review 3D protein structure alignments

ARRIBA Lípidos INICIO
Lipase Engineering Database Integrated information on sequence, structure, and function of lipases and esterases
Lipid MAPS Lipid-associated proteins
LMPD LIPID MAPS Proteome Database. A database of lipid-associated protein sequences and annotations.
GOLD db (Genomics of Lipid Associated Disorders Database)Provides an integration of information on function and properties of genes and their protein products relevant to lipid assiciated disorders.
LMPD (LIPID MAPS Proteome Database)A database of lipid-associated protein sequences and annotations.
LIPID BANK for Web
LIPID MAPSLIPID Metabolites And Pathways Strategy
DOLOPDb of bacterial lipoproteins



ORGANELOS
Organelle DB Organelle proteins and subcellular structures

ARRIBA Mitocondrias INICIO
MitoRes Nuclear genes coding for mitochondrial proteins
MitoProteome Mitochondrial protein sequences encoded by mitochondrial and nuclear genes

ARRIBA Plastos INICIO
Chloroplast Genome Database Chloroplast genome database

ARRIBA Otros organelos INICIO
PeroxisomeDB Peroxisomal proteins, metabolic routes and diagnostic tools

ARRIBA TAXONOMÍA INICIO
TreeBase Phylogenetic trees and the data matrices used to generate them
GeneTrees Pre-compiled alignments and gene phylogenies for a variety of taxonomic groups
NCBI Taxonomy Browser Names of all organisms that are represented in GenBank
Ribosomal Database Project (RDP-II) rRNA sequence data, analysis tools, alignments, and phylogenies
RISSC - Ribosomal Internal Spacer Sequence Collection Ribosomal 16S-23S RNA gene spacer regions
The Tree of Life
GPDD (Global Population Dynamics Database)A source of animal and plant population data. Includes population counts and taxonomic details for over 1400 species.
NEWT (New EBI Web Taxonomy)Contains taxonomy data compiled in the NCBI database and integrated with data specific to the Swiss-Prot protein knowledgebase.

ARRIBA BIOINFORMÁTICA INICIO
 Global Computational Resources for Bioinformatics Research
Swiss Institute of Bioinformatics

ARRIBA MUTANTES INICIO

ARRIBA PATENTES INICIO
Patents STO's Internet Patent Search System
U.S. Patent Database
DPDDNA Patent db
USDA Agricultural Biotechnology Intellectual Property
Esp@cenetPatent information database from the European Patent Office (worldwide coverage)
FindThatPatent
FreePatentsOnlineAccess to millions of patents
WikiPatentsThe largest database of patents open for public comment on the internet
Germany Patent databaseWith full-text and one-click patent search
Japanese Patents and Inventions
USPTO patent dbUSA Patent and Trademark Office patent db
PAtGen DBCompiled for the purpose of studying legal and bioinformatic issues regarding genetic sequence patent publications, it contains information on patented and patent pending biological sequences.
Japan Patent Office
United States Patent and Trademark Office





ARRIBA OTRAS INICIO
BioModels Mathematical models of biochemical and cellular systems