drug design, and other medical databases and tools

ANTIMIC -- A Database of Antimicrobial Peptides Sequences
Search for sequence and other information of known and putative antimicrobial peptides (AMPs).
APD2 -- the Antimicrobial Peptide Database
Search for detailed information on antimicrobial peptides.
AngioDB -- database of angiogenesis and angiogenesis-related molecules
Search for information about angiogenesis and angiogenesis-related molecules.
BSD -- the Biodegradative Strain Database
Search for detailed information on degradative bacteria and the hazardous substances that they degrade.
BindingDB -- a web-accessible database of experimentally determined proteinx96ligand binding affinities
Search for published protein-ligand binding affinity data.
BioDrugScreen -- Docking Resource for Structure-Based Computational Drug Design
Perform drug discovery based on docking structure.
Biobanks -- transnational, European and global networks
A key resource in unravelling the association between disease subtypes and small, but systematic, variations in genotype, phenotype, and lifestyle.
CAMP -- Collection of Anti-Microbial Peptides
Find information about antimicrobial peptides (AMPs) as better substitutes to antibiotics.
CYCLONET x97 an integrated database on cell cycle regulation and carcinogenesis
Search information on cell cycle regulation in mammals in normal and pathological states
DART -- Drug adverse reaction target database
Search for information on documented adverse reaction targets, functions and properties.
DITOP -- Drug-induced toxicity related protein database
Provides comprehensive information of drug-induced toxicity related proteins.
DrugBank -- a comprehensive resource for in silico drug discovery and exploration
Combines detailed drug data with comprehensive drug target and drug action information.
DrugViz -- a Cytoscape plugin for visualizing and analyzing small molecule drugs in biological networks
Analyze data from chemogenomics, metabolomics and systems biology.
FAF-Drugs -- free ADME/tox filtering of compound collections
Process compound collections via simple ADME/Tox filtering rules.
GLIDA -- GPCR-ligand database for chemical genomic drug discovery
Search for information on G-protein coupled receptors (GPCRs) and their known ligands.
Gene Review
Search for online publication of expert-authored disease reviews
Geno2pheno -- estimating phenotypic drug resistance from HIV-1 genotypes
Predict phenotypic resistance of the respective virus to 17 antiretroviral drugs.
HIT -- Herbal Ingredients' Targets database
Find information about the protein targets of herbal compounds.
KEGG PATHWAY Database
Search a collection of pathway maps on metabolism, signal transduction, gene regulation, and cellular processes.
MATADOR -- Manually Annotated Targets and Drugs Online Resource
Resource for protein-chemical interactions.
MEDock -- a web server for efficient prediction of ligand binding sites based on a novel optimization algorithm
Predict ligand binding sites in protein molecules with a Maximum-Entropy based docking Web server.
MICAD -- The Molecular Imaging and Contrast Agent Database
Provides freely accessible online scientific information on in vivo molecular imaging and contrast agents.
MetaRouter -- bioinformatics for bioremediation
Search for information related to bioremediation and biodegradation.
NAPROC-13 -- search tools to find out the structure of a compound
A database for the dereplication of natural product mixtures in bioassay-guided protocols.
NIH AIDS Research and Reference Reagent Program
Search information on biological and chemical materials for study chemical materials for study of HIV and related opportunistic infections.
NORINE -- a database of nonribosomal peptides
Database entirely dedicated to nonribosomal peptides (NRPs).
PDSP (Psychoactive Drug Screening Program) Drug Database
Search for Ki values (affinity constants) for a large number of G-protein coupled receptors (GPCR's), transporters, and ion channels.
PK/DB -- pharmacokinetic properties database
Database for pharmacokinetic properties and predictive in silico ADME models.
PROMISCUOUS -- Comprehensive Drug-Repositioning Database
Find information about drugs, proteins and side effects.
PharmGED -- Pharmacogenetic Effect Database
Search for information about the effects of a particular protein polymorphism, non-coding region mutation, splicing alteration, or expression variation on the response of a particular drug.
PharmGED -- Pharmacogenetic Effect Database
Search for information about the effects of a particular protein polymorphism, non-coding region mutation, splicing alteration, or expression variation on the response of a particular drug.
PharmGKB -- The pharmacogenetics and pharmacogenomics knowledge base
Search for information about how variation in human genes leads to variation in response to drugs.
PharmaGist -- a webserver for ligand-based pharmacophore detection
Predict molecular interactions for drug design.
Quadbase -- a database of quadruplex motifs
Genome-wide database of G4 DNA--occurrence and conservation in human, chimpanzee, mouse and rat promoters and 146 microbes
STITCH -- search tool for interactions of chemicals
Integrates information about interactions from metabolic pathways, crystal structures, binding experiments and drug-target relationships.
SePreSA -- SErver for the PREdiction of populations susceptible to Serious Adverse drug reaction
Find information about populations carrying polymorphisms within protein binding pockets that make them susceptible to serious adverse drug reaction (SADR).
SuperDrug -- 2D and 3D chemical structures of various drugs
Search for 2D and 3D chemical structures of various drugs.
SuperNatural -- a searchable database of available natural compounds
Search for 50000 natural compounds from different suppliers.
SuperPred -- target-prediction server
Drug classification and target prediction.
SuperTarget -- integrates drug-related information
Find information about drugs.
SuperToxic -- a comprehensive database of toxic compounds
A collection of toxic compounds from literature and web sources.
T3DB -- Toxin and Toxin-Target Database
Find biological, chemical and mechanistic information about clinically relevant, commonly encountered or important toxins.
TTD -- Therapeutic Target Database
Search for information about known therapeutic protein and nucleic acid targets, the targeted disease conditions, the pathway information and the corresponding drugs/ligands.
TarFisDock -- a web server for identifying drug targets with docking approach
Identify drug targets using docking approach.
The Connectivity Map -- Using Gene-Expression Signatures to Connect Small Molecules, Genes, and Disease
Use gene expression profiles to discover functional connections among diseases, genetic perturbation, and drug action.
The HIV positive selection mutation database
Search for selection pressure maps of HIV mutation caused by HIV protease/reverse transcriptase.
The MetaFMF website -- A high quality tool for meta-analysis of FMF
Search for unified data on phenotypex96genotype correlation in familial Mediterranean fever (FMF).
The Peptaibol Database -- A Database for Sequences and Structures of Naturally Occurring Peptaibols
Search for sequence and structure information of natural peptaibols.
The bioinformatics resource for oral pathogens
Search for comprehensive information on molecular biology of oral pathogens.
e-LEA3D -- Drug Design Server
Perform computer-aided drug design based on molecular fragments.

Comments

Post a Comment

Popular posts from this blog

Error mounting /dev/sda2 at /media

Error mounting /dev/sda2 at /media/debo/2290657790655279: Command-line `mount -t "ntfs" -o "uhelper=udisks2,nodev,nosuid,uid=1000,gid=1000,dmask=0077,fmask=0177" "/dev/sda2" "/media/debo/2290657790655279"' exited with non-zero exit status 14: Windows is hibernated, refused to mount. Failed to mount '/dev/sda2': Operation not permitted The NTFS partition is in an unsafe state. Please resume and shutdown Windows fully (no hibernation or fast restarting), or mount the volume read-only with the 'ro' mount option.       The problem is exactly what it says. If your windows has not properly shutdown, Ubuntu would not mount it in read write mode as writing to the disk may corrupt it. You can however mount it in read only mode using the command: sudo mount -o ro /dev/sda2 /media/folder  
Read more

Exomiser error " Exception in thread "main" java.lang.OutOfMemoryError: Java heap space "

Exomiser error " Exception in thread "main" java.lang.OutOfMemoryError: Java heap space " full line is " 2017-07-04 02:34:52.617 [main] INFO  de.charite.compbio.exomiser.core.factories.VariantFactory - Processed 325375 variant records into 326224 single allele variants, 989 are missing annotations, most likely due to non-numeric chromosome designations " solution is, u have to increase java heap size like this  before change, it was  -Xms2g -Xmx4g      and now after change   -Xms4g -Xmx10g
Read more