Useful links and downloads
Web tools
Sequence selection tools
BLAST
Tool for sequence search in databases
ClustalW
Multiple sequence alignment program for DNA or proteins
Ensembl
Database with several annotated eukaryotic genomes
GeneCards human gene database
Database of known and predicted human genes and gene related information
Ingenuity
Gene database from Sigma
mirSearch
Quickly find microRNAs involved in your area of research
NCBI
Database with all available DNA sequences
SpliceMiner
Tool to look for known splice variants
UCSC Genome Bioinformatics
Information of genes from different databases in one place. Provides very fast In-Silico PCR tool.
Pre-designed primers and probes databases
Primer bank
Database of predesigned qPCR primers and probes
Real-time PCR primer and probe sets
Database of predesigned qPCR primers and probes
RTPrimerDB- primer and probe database
Database of predesigned qPCR primers and probes
Primer design tools
Exon Primer
Tool for designing exon-spanning primers
Primer3
Tool for web-based primer design
Primer-BLAST
Finding primers specific to your PCR template (using Primer3 and BLAST)
RealTimeDesign
Tool for web-based qPCR primer design
Tools for evaluating designed PCR systems
Beacon Designer Free Edit
Online tool for analyzing SYBR® Green primers and TaqMan® probes
mFold
Tool for checking secondary structures of DNA or RNA
Netprimer
Tool for analyzing primers for Tm, secondary structures and primerdimer formation
Tools for evaluating oligonucleotide properties
Copy number calculator
Tool for calculating the number of copies of a template
DNA melt-point calculator
Tool for calculating the melting temperatures of oligonucleotides
DNA/RNA Absorption Concentration Calculator
Tool for converting measured absorption to concentration of DNA or RNA in your sample
Oligonucleotide Properties Calculator
Tool for establishing the physical and chemical properties of oligonucleotides
Poland
Determine Tm for your amplicon before running a HRM assay.
Tools for Digital PCR
uCount
Calculator for the mean and confidence intervals for digital PCR data.
BioMarkers
The Global Alliance for Genomics and Health
An international coalition, formed to enable the sharing of genomic and clinical data
The International Cancer Genome Consortium
Protocols and links
Gene Quantification web page
Describes and summarizes technical aspects in gene quantification using qPCR
qPCR net
News about qPCR related events, companies and products
The MIQE guidelines
Minimum Information for Publication of Quantitative Real-Time PCR Experiments
Forums and newsgroups
Biotechniques Molecular Biology Discussion forum
Downloads
Beacon Designer and Allelle ID
Download free trial version of Beacon Designer and Allelle ID
GenEx
Download the 14-day-free evaluation copy of GenEx Data Analysis Software
