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Features validated in most cases
Gene expression
MicroRNA
Pathways
Primer designing
Protein-protein interactions (commonly used resources)
Protein structure prediction
SNP analysis
Features not validated
Alternative splice form analysis
DNA motif detection
Microbiology
Multiple sequence alignment
Next generation sequencing
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Carbohydrates
Gene ID conversion
Lipids
Promoter prediction
Protein-protein interactions (all resources)
RNA structure prediction
SNP analysis
Preliminary lists
Antibodies
Biomarkers
Cell lines
Clinical trials
DNA/RNA structures
Disease-gene relationships
Enzymes
Functional analysis
Gene Ontology specific analysis
Gene/protein unified information
Genetics
Genomes and Genomics
Mass spectrometry
Microarray data analysis
Molecular docking
Nomenclature
Organelles
Orthologs
Pharmacokinetics and toxicology
Phylogeny/Taxonomy
Protein domains
Protein localization
Protein-nucleic acid interactions
Secretome
Small molecules
Spectral analysis
Text-mining
Transcription factors and binding sites
Suggested Readings
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Comparison of resources
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Total Resource - 303
A cSNP Map and Database for Human Chromosome 21
A-MADMAN
- Annotation-based MicroArray DataMeta ANalysis tool
AANT
- Amino Acid-Nucleotide Interaction Database
ABA
- A-Bruijn Alignment
ABADV- Allen Brain Atlas-Driven Visualizations
ABLas software
ABS
Accelrys
Ace-it- Array CGH Expression integration tool
AceView
ActiTrack
ADAM
ADAPT II
ADDPLAN
ADHESOMEFANetwork
ADME
- Absorption, Distribution, Metabolism, Excretion databases (by UCSD)
admetSAR
AERD
- Antibody/Epitope Registry database
AgAbDb
- Antigen Antibody Interactions Database
AGD
- Ashbya Genome Database
AGE
- Alignment with Gap Excision
Agene
agReg-SNPdb
AHOD - Australian HIV Observational Database
Alamut software
ALEXA-seq
ALFRED
Ali Baba
- PubMed as a Graph
AliComp
- Alignments Comparison
AlignACE
ALLERGEN NOMENCLATURE
Alt Event Finder
Alt tox.org
Alternative Exon Database
Alternative Splicing Effects ASsessment Tools (AS-EAST)
AMADA
Amborella Genome Database
AMEN-Annotation, Mapping, Expression and Network
AMIGene
- Annotation of MIcrobial Genes
AMPHORA
AncestrySNPminer
ANEXdb
Animal Genome Database
AnimalTFDB
Annotation-Modules
Antagomirbase
Antibodies Online
Antibody validation database
ANTIMIC
- A Database of Antimicrobial Peptides Sequences
APA scan
AphidBase
ApiESTDB
Applied clinical trials online
Arabidopsis Co-Expression Tool (ACT)
AraCyc
ArboDraw
Argonaute database
ARNIE
- AVEXIS Receptor Network with Integrated Expression
Array Studio
ArrayExpress
ArrayLeaRNA
ArrayOU
ArrayProspector
arraySCOUT
ArrayWiki
ARTS
AS-ALPS (alternative splicing-induced alteration of protein structure)
AS-Quant (Alternative Splicing Quantitation)
ASAP II
- Alternative Splicing Annotation Project
ASDB
ASePCR
asg
- Alternative Splicing Gallery
ASGS
- Alternatively Splicing Graph server
ASimulatoR
ASlive
ASMD
- Alternative Splicing Mutation Database
ASNEO DB
AspAlt
ASpedia-R
ASPIC
ASPicDB (Alternative Splicing Prediction Database)
ASPNs db
ASRP- Arabidopsis Small RNA Project Database
AssociationViewer
Astalavista
- Alternative splicing transcriptional landscape visualization tool
Asterias
ASTRA
- Alternative Splicing and TRanscription Archives
atBioNet
ATDB 2.0
- The Animal Toxin DataBase 2.0
Athamap colocalisation
ATHENA- Analysis Tool for Heritable and Environmental Network Associations
AtNAGNAG DB
AtPID
- Arabidopsis thaliana Protein Interactome Database
atSNP
Attie Lab Diabetes Database
AUREA- Adaptive Unified Relative Expression Analyzer
AutoDock Vina
AutoSNPa
AVA
- Array Visual Analyzer
Avian Genomes
AVISPA
A SNP resource and a genetic linkage map for Atlantic cod (Gadus morhua)
A4-Adaptive Automated Annotation
AB Large Indel Tool
ABAC database
abcam®
- discover more
ABMapper
Abysis
Accurate
Aceprimer
acslXtreme
ACToR
- Aggregated Computational Toxicology Resource
Adamant
ADDA
- Automatic Domain Decomposition Algorithm
adegenet 1.3-1
ADiR
- Assembler for Di-base Reads
ADME-AP
- Absorption, Distribution, Metabolism, Excretion -Associated Protein
ADVICE
- Automated Detection and Validation of Interaction by Co-Evolution
AffyMAPSDetector
AgBase
AgDB
- Ashbya Genome Database
AGEMAP -Atlas of Gene Expression in Mouse Aging Project
aGeneApart
agReg-SNPdb-Plants
AIDA array
Alcovna
- Algorithms for Comparing and Vizualizing Non Assembled data
ALEXA-Seq
- ALternative EXpression Analysis
Algal Function Annotation tool
AliBaba
Align-m
AliGraf
- Graphical Image of Alignment
ALLPATHS
Alt Event Finder tool
Alta Cyclic
Alternative Splicing Assembler (ASA)
Alternative Splicing Gallery (ASG)
Amadeus
AMDA
- Automated Microarray Data Analysis
AMIA
- Automated Microarray Image Analysis Toolbox for MATLAB
AMOS
- A Modular Open Source whole genome assembler
AMPK signaling pathway
ANCHOR
angaGEDuCI
Animal Genome Size Database
AnimalTFDB
- Animal Transcription Factor DataBase
AnnotationTools
Anti-cancer agent mechanism database
Antibody directory
Antibodypedia
ANTISTAPHYBASE
APADB
APID/APIN
- Agile Protein Interaction DataAnalyzer
APIS
APPRIS
Arabidopsis MPSS
ARALIPmutantDB
ArchDB
ARMADA
- Automated Robust Microarray Data Analysis
ARPIR software
Array-Pro Analyzer
- Microarray analysis software for fast, accurate and repeatable results
ArrayExpressHTS
ArrayMiner
- Powerful analysis tool for your microarray gene expression data
ArrayPipe
ArrayProspestor
ArrayTrack
ArrayXPath
ARTS
- Alignment of RNA Tertiary Structures
AS-ALPS
- Alternative Splicing Induced Alteration of Protein Structure
ASAP ( Alternative Splicing Annotation Project)
ASCancer Atlas DB
ASDB
- Alternative Splicing Database
ASES tool
ASGAL (Alternative Splicing Graph ALigner)
ASHESdb
ASIP
- Alternative Splicing in Plants
AsMamDB
ASmiR db
ASNP db
AspAlt tool
ASpediaFI DB
ASPic
- Alternative Splicing Prediction
ASPicDB
- Alterenative Splicing Prediction database
Asprofile
ASSESS
- Analysis of Sample Set Enrichment Scores
ASSP
ASTD (Alternative Splicing Transcript Diversity)
ASTK
ASTRAL
AtCAST3
ATGCs
- Alignable Tight Genomic Clusters
Athamap gene analysis
Atlas-Indel2
ATOME
AtPIN
- Arabidopsis thaliana protein interaction network
ATTED-II
Augustus
Australian cancer trials
AutoPrime
AutoSNPdb
Avadis NGS
AVID
- Annotation Via Integration of Data
Axeldb or Xenbase
A SNP resource for dissection of phenotypic and genetic variation in Pacific white shrimp (Litopenaeus vannamei)
AAIR
AB Small Indel Tool
ABACAS
- Algorithm Based Automatic Contiguation of Assembled Sequences
AbDesigner
AbMiner
ABySS
- Assembly By Short Sequences
ACCUSA
ACEScan
ACT
- Arabidopsis Co-Expression Tool
AD-gene curated database
ADAN
- Prediction of protein-protein interActions of moDular domAiNs
ADDock
ADGO
ADME
- Absorption, Distribution, Metabolism, Excretion database (by aureus sciences)
ADMEDB by FUJITSU
aeGEPUCI
Affymate
AgBase
- AgricultureBase database
AgdbNet
- antigen sequence database
AgenDA
- Alignment based Gene Detection Algorithm
AGILE
- AliGnIng Long rEads
AHMII
- Agent to Help Microbial Information Integration
AIR (Annotation Integrated Resource) tool
ALE-HAS
Alexa-Seq
- Alternative Expression Analysis By RNA Sequencing
Algal Functional Annotation Tool
Alibee
Alignace
Allegro
ALOHOMORA
Alt Splice db
AltAnalyze
Alternative Splicing Detection Tool (ASDT)
AltTrans DB
aMAZE
AMEN
- Annotation, Mapping, Expression and Network
AMIADA
- Analysing MIcroArray Data
AMP
- Automated Microarray Pipeline
Amplicon
Anchored DIALIGN
angaGEDUCI
- Anopheles gambiae Gene Expression Database at UC Irvine
Animal-SNPAtlas
AnimalTFDB2
ANNOVAR
Antibiotic Kinetics©
Antibody Resource
AntiJen
ANZCTR
- Australian New Zealand Clinical Trials Registry
APD2
- antimicrobial peptide database
APID2NET
APK©
- Adult and Pediatric Kinetics
APPRIS database
Arabidopsis Reactome
AraNet
- Probabilistic Functional Gene Network of Arabidopsis thaliana
Argonaute
aRNApipe tool
Array Designer
ArrayCluster
ArrayFox
ArrayMining
- Online Microarray Data Mining
Arrayplot
ArrayQuest
- An online DNA microarray analysis system
ArrayVision
ArrayXpath
ARUP Utah db
AS-CMC
ASAP II
ASD
ASE database
ASFinder
ASGS
AsiDesigner
ASIP(Alternative Splicing in Plants)
ASMD
ASmodeler
ASP (Alternatively Spliced Protein forms)
ASpedia
AspGD
- Aspergillus Genome Database
ASPicDB
ASpli software
ASRG
- ArabidopsisSplicing Related Genes
ASSIsT
ASTALAVISTA (alternative splicing transcriptional landscape visualization tool)
ASTER spectral library
ASTool
AStrap db
ATCC
- American Type Culture Collection
AtGenExpress
Athena
- Arabidopsis thaliana expression network analysis
Atlas-SNP2
AtPID
AtRTD3 (Arabidopsis thaliana Reference Transcript Database3)
ATTED-II
- Arabidopsis thaliana trans-factor and cis-element prediction database
AuPosSOM
AutoDock
AutoPSI
AVA
- Amplicon Variant Analyzer
AVATAR
AVIS
- AJAX viewer of interactive signaling networks
AYB
 
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