GenomeNet Database Service
3DID
3D interacting domains
AANT
Amino Acid-Nucleotide Interaction Database
AARSDB
Aminoacyl-tRNA Synthetase Database
ABCdb
Archaea and Bacteria ABC transporter database
ABS
Annotated regulatory
Binding Sites from orthologous promoters
AfCS
Alliance for Cellular Signaling Molecule Pages Database - comprehensive and up-to-the-minute resource for anyone interested in signal transduction
AffinDB
Affinities for protein-ligand complexes from the PDB
Argonaute
Gene regulation by mammalian microRNAs
ASC - Active Sequences Collection
Collection of Active protein Sequences, or protein fragments or subsequences, collected in the form of function-oriented databases
AZGeNetScene Visualizer
Navigate genetic regulatory pathway relations that are automatically extracted from biomedical literature
BBID Biological Biochemical Image Database
images of putative biological pathways, macromolecular structures, gene families, and cellular relationships.
BIND
Biomolecular Object Network Database
BindingDB
The Binding Database - database of measured binding affinities for biomolecules, genetically or chemically modified biomolecules, and synthetic compounds
BioCarta: genes
Observe how genes interact in dynamic graphical models
BioGRID
General Repository for Interaction Datasets
BioSilico
web-based database system that facilitates the search and analysis of metabolic pathways
BioSilico
web-based database system that facilitates the search and analysis of metabolic pathways
BMPH
Boehringer Mannheim Biochemical Pathways Wall Chart
cisRED
Cis-regulatory element database - conserved sequence motifs identified by genome scale motif discovery, similarity, clustering, co-occurrence and coexpression calculations
CLiBE
Computed Ligand Binding Energy - analysis of Drug Binding Competitveness
COMPEL
Database on Composite Regulatory Elements
CSP
Cytokine Signaling Pathway Database
CST
Cell Signaling Technology Pathway Database
CTD
Comparative Toxicogenomics Database - elucidates molecular mechanisms by which environmental chemicals affect human disease
CTDB - Calmodulin Target Database
Binding site archive, search and analysis
DBTBS
Database of Bacillus subtilis Promoters and Transcription Factors
DBTGR
DataBase of Tunicate Gene Regulation
DIP
Database of Interacting Proteins
DopaNet
The Meso-Telencephalic Dopamine Consortium
DOQCS
Database of Quantitative Cellular Signaling
DPIDB
DNA-Protein Interaction Database
DPInteract
DNA-Protein Interactions Database
Drastic
Database Resource for Analysis of Signal Transduction In Cells
DRC
Database of Ribosomal Crosslinks
DrugBank
combines detailed drug (i.e. chemical, pharmacological and pharmaceutical) data with comprehensive drug target (i.e. sequence, structure, and pathway) information
DSM
Dynamic Signaling Maps
ECRbase
Evolutionary Conserved Regions (ECRs), Promoters,
and Transcription Factor Binding Sites in Vertebrate Genomes
created using ECR Browser alignments
eMIM
Electronic Molecular Interaction Map
ERGO Genome Analysis and Discovery System
Curated database of public and proprietary genomic DNA, with connected similarities, functions, pathways, functional models and clusters
FIMM
Functional Molecular Immunology - integrated database of functional immunology, focusing on MHC, antigens, T- and B-cell epitopes, and diseases
FusionDB
Prokaryote Gene Fusion Events
GeneNet
Genetic Networks is designed for formalized description and automated visualization of gene networks. Includes database on gene network components, Java program for the data visualization.
GeneNet - Genetic Networks
Formalized description and automated visualization of gene networks. Includes: database on gene network components, Java program for the data visualization.
GenePath
web-enabled intelligent assistant for the analysis of genetic data and for discovery of genetic networks.
GeNet
Gene Networks Database
GTDB
Glycosylation Pathways Database
HCNet
Heart and Calcium Functional Network Database
Hedgehog
Hedgehog Signaling Pathway Database - Resources and Annotations of the Hedgehog Signaling Pathway
HemoPDB
Hematopoiesis Promoter Database - transcriptional regulation in hematopoiesis
Het-PDB_Navi
Navigator of small molecules in Protein Data Bank which is called heterogen atoms or in short hetatoms
HiMAP
Human Interactome Map
HIVMID
HIV Molecular Immunology Database
HPRD
Human Protein Reference Database
HSV1 PPI
Protein-Protein Interactions Table for Human herpesvirus 1
HTPSELEX
Contains sets of invitro selected transcription factor binding site sequences obtained with SELEX and high-throughput SELEX method.
ICBS - Inter-Chain Beta-Sheets
Database of protein-protein interactions mediated by interchain ß-sheet formation
iHOP
Information Hyperlinked Over Proteins
InBase
The Intein Database - curated database devoted to inteins
INOH - Integrating Network Objects with Hierarchies
Pathway database of model organisms including human, mouse, rat and others
IntAct
Open source database system and analysis tools for protein interaction data
Interolog
Interolog/Regulog Database
Invitrogen iPath
User-friendly comprehensive online resource for gene- or protein-based scientific research
JASPAR
JASPAR Transcription Factor Binding Profile Database
JenPep Peptide Binding database
Quantitative binding data for immunological protein-peptide interactions
KDBI
Kinetic Data of Bio-molecular Interactions database
KEGG BRITE database
Functional hierarchies and binary relationships of biological entities
KEGG LIGAND Database
Database of Chemical Compounds and Reactions in Biological Pathways
KiBank
KiBank for in silico drug design. Contains binding affinity, structures of chemicals and target proteins
KMIM - Kohn Molecular Interaction Maps
Unambiguous representation of networks containing multi-protein complexes, protein modifications, and enzymes that are substrates of other enzymes.
Ligand Depot
Integrates databases, services, tools and methods related to small molecules bound to macromolecules
LipiDomeDB / GOLD.db - Genomics of Lipid-associated Disorders
Function and properties of genes/proteins particularly relevant to biology, diagnosis management, treatment, and prevention of lipid-associated disorders
LSPD
The Liver Specific Gene Promoter Database
MDB
Metalloprotein Database
MeRNA
Metal Ion Binding Sites in RNA
MEROPS
MEROPS Peptidase Database - information resource for peptidases (also termed proteases, proteinases and proteolytic enzymes) and the proteins that inhibit them
microrna.org
Microrna.org target database, microRNAs
MINT - Molecular Interactions Database
Experimentally verified protein interactions mined from the scientific literature by expert curators
MIPS CYGD
MIPS Comprehensive Yeast Genome Database
miRBase
microRNA Database
miRNAMap
MicroRNA Map - genomic maps for microRNA precursors and their mapping to targets in vertebrate genomes
MPB - Metabolic Pathways of Biochemistry
Online reference of metabolism: graphically represent all major metabolic pathways, primarily those important to human biochemistry
MPID-T - MHC-Peptide Interaction Database version T
sequence-structure-function information on T cell receptor/peptide/MHC interactions, TcR/pMHC and pMHC complexes
MPromDb
Mammalian Promoter Database - gene promoters with experimentally supported annotation of transcription start sites (TSS), cis-regulatory elements, CpG islands and ChIP-chip experimental results with intuitively visualized presentation
NetBiochem
Medical Biochemistry Resource - Multimedia Support Center for the Health Sciences
Nicholson Minimaps
International Union of Biochemistry &
Molecular Biology - IUBMB-Nicholson Minimaps
NPInter
Noncoding RNAs and protein related biomacromolecules interaction database
NRR
Nuclear Receptor Resource - collection of individual databases on members of the steroid and thyroid hormone receptor superfamily
Oncomine
Cancer profiling database
OPHID
The Online Predicted Human Interaction Database
ORDB
Olfactory Receptor Database
PANTHER
Protein ANalysis THrough Evolutionary Relationships - Classification System is resource that classifies genes by their functions, using published scientific experimental evidence and evolutionary relationships
Pathcalling
Curagen Pathcalling - foundation for genomic-based drug discovery and development
Pathway Slides
Cell Signaling Pathway Slides & Charts
PDB-Ligand
Three dimensional structure database of small molecular ligands that are bound to larger biolomocules
PDS - PathCase Metabolic Pathway Database System
Web-based bioinformatics tool to store, query, and visualize metabolic pathways: Biological pathway, process, and molecular entity browsers, powerful built-in queries, and gene ontology viewers
PDSP
Psychoactive Drug Screening Program Ki Database
PDZBase - PDZ domain protein-protein interaction database
Manually curated protein-protein interaction database developed specifically for interactions involving PDZ domains
PharmGKB
The Pharmacogenetics and Pharmacogenomics Knowledge Base
Phospho.ELM - Post-translational phosphorylation database
S/T/Y phosphorylation sites
PhosphoBase
Database of phosphorylation sites
PID - Pathway Interaction Database
Curated collection of information about known biomolecular interactions and key cellular processes assembled into signaling pathways
PLD
Contains biomolecular data, including binding energies, Tanimoto ligand similarity scores and protein sequence similarities of protein-ligand complexes
Precise
Predicted and Consensus Interaction Sites in Enzymes
PRID
Protein-RNA Interaction Database
PRODORIC
Prokaryotic database of gene regulation
ProNIT
Thermodynamic Database for Protein-Nucleic Acid Interactions
Protein Lounge
Protein Lounge
pSTIING
Protein, Signalling, Transcriptional Interactions & Inflammation Networks Gateway - protein-protein, protein-lipid, protein-small molecules, ligand-receptor interactions, receptor-cell type information, transcriptional regulatory and signal transduction
REBASE
Restriction Enzyme Database
RegulonDB
Database on Transcriptional Regulation and Genome Organization
RegulonDB - Escherichia coli K12 Transcriptional Network
Database on Transcriptional Regulation and Genome Organization
ResNet
Family of databases that include information and knowledge harvested from the complete PubMed in a formal structure that allows searching, retrieval and updating by users of Pathway Studio
RiceCyc
The rice metabolic pathway database
ROSPath
Reactive Oxygen Species related Signaling Pathway
S/MARt_DB - The S/MAR transaction DataBase
Scaffold/matrix attached regions and nuclear matrix proteins that are supposed be involved in the interaction of these elements with the nuclear matrix
SABIO-RK
System for the Analysis of Biochemical Pathways - Reaction Kinetics.
SBML Model Repository
Database of Annotated Published Models
SCOPEC
Database of protein catalytic domains
SCPD
The Promoter Database of Saccharomyces cerevisiae
SELEX_DB
Randomized DNA/RNA sequence database
Sentra
Sentra Signal Transduction Database (prokaryotic signal transduction proteins)
SYFPEITHI
Database of MHC Ligands and Peptide Motifs
TCDB
Transport Classification Database details a comprehensive IUBMB approved classification system for membrane transport proteins known as the Transporter Classification (TC) system
TECR
Thermodynamics of Enzyme-Catalyzed Reactions
TGDB
Tumor Gene Database
TRACTOR_DB
Computationally predicted Transcription Factors' binding sites in gamma-proteobacterial genomes.
TRANSFAC
Transcription Factor Database
TransportDB
Genomic comparison of membrane transport systems
TRED
Transcriptional Regulatory Element Database
TRMP
Therapeutically Relevant Multiple Pathways Database
TRRD
Transcription Regulatory Regions Database
TTD
Therapeutic Target Database
XPD
Phosphorylation Site Database
YEASTRACT
YEAst Search for Transcriptional Regulators And Consensus Tracking
You are in: Yabi >
Databases [135 links]
Subcategories:
Links: