The Molecular Biology Notebook Online
PCR Reaction
This movie shows what happens during a PCR reaction.
Go back to the PCR page
Related Links
This is a search for pcr in our database
- Design PCR Primers: tools: A list of free web applications to design PCR primers: including alignment primers, primers for RAPDS and from protein sequences. This team has done a great job at reviewing what is there.
- FastPCR Online Manual: FastPCR is free PCR primer and probe design software. It is efficient for standard, long, real-time PCRs, for inverse PCR, direct amino acid sequence degenerate PCR, multiplex PCR, LUX primers design for quantitative PCR, automatically SSR loci detection and direct PCR primers design, and in silico PCR. It can also perform sequence alignments, clustering and any kind repeat sequence searching.
- HHMI's BioInteractive: Virtual Labs: Use cutting-edge DNA sequencing techniques and powerful database searches to identify an unknown bacterial species! In this lab, you will learn about polymerase chain reaction (PCR), automatic DNA sequencers, and the science of using a database of known DNA sequences to identify an organism.
- Paper on FreeTree - tree computation program: It was originally intended for the analysis of results of DNA fingerprinting methods (RFLP, RAPD, AP-PCR) or other methods which provide binary character data (presence/absence of the characters). For such data the program computes the distance matrix, constructs the phylogenetic or phenetic tree and computes bootstrapping or jackknifing values for internal branches of the tree.
- PCR Jump Station: The ultimate Web page for information and links on all aspects of the Polymerase Chain Reaction (PCR)
- PrimerBlast: a primer design tool from NCBI: Finding primers specific to your PCR template (using Primer3 and BLAST).
- Protocol Online: This site contains useful protocols and reference material of all kinds mainly for the bench scientists, but by far the most useful part is the Bioforum Archive. This site can be very useful, particularly when you are doing a new procedure that no one in the lab has done. Just type in a query if you are having difficulty in the lab, eg qPCR primer design, and read where other people get stuck and solutions etc. The comments are well written (usually) and concise. Usually the questions get answered too which is a bonus.
- PVanal: A package was produced at Rothamsted (PJ Verrier) to explore (at the time) the latest techniques of analysis. The program (PVanal) produced has now been used to analyse many cDNA array experiments and the resultant analysis has been checked using RT-PCR and other methods.
- REST-284: Relative Expression Software Tool: Therefore new software tools were established, named REST © (Relative Expression Software Tool), which compare two or more treatments groups or conditions (in REST-MCS), with up to 100 data points in sample or control group (in REST-XL), for multiple reference genes and up to 15 target genes (in REST-384) . The mathematical model used is based on the correction for exact PCR efficiencies and the mean crossing point deviation between sample group(s) and control group(s). Subsequently the expression ratio results of the investigated transcripts are tested for significance by a Pair Wise Fixed Reallocation Randomisation Test © and plotted using standard error (SE) estimation via a complex Taylor algorithm.
- SIGMA: The entire Sigma catalog on line. Search by name, number, chemical structure and any key word.
All Biochemicals for any type of laboratory work.
All types of PCR reagents (Taq, JumpStart Taq,
RedTaq, AccuTaq, dNTPs, custom oligos etc)
Sequencing reagents (gels, plates, clean-up kits)
DNA and RNA purification kits (plasmid, genomic, etc)
Recombinant protein expression (Trasnfection reagents, vectors, media,
competent cells, purification supports, western blotting reagents etc)
Cell culture reagents (media, fetal bovine serum)
Cell signaling reagents (antibodies, reagents, kits)
Package inserts on-line. MSDS info on-line. Orders taken on-line - handled by your local Sigma-Aldrich office. Pricing on-line in most national currencies. Technical Services ("Ask a Scientist") on-line - Software for the Analysis of RAPD Data Sets: I have cobbled this page together in an attempt to inform other researchers of programs that are available from the web to assist in the analysis of genetic data acquired from RAPD-PCR.
- TmPrime: TmPrime is a computer program to design oligonucleotide sets for LCR- and PCR-based gene synthesis to construct man-made DNA sequences by assembling pools of oligonucleotides. The program divides the long input DNA sequence based on the user specified melting temperatures and assembly conditions, and dynamically optimizes the length of oligonucleotides to achieve homologous melting temperatures. The output reports the melting temperatures, oligonucleotide sequences, and potential formation of secondary structures in a PDF file which will be sent to you via email.
- UGENE - Unipro: UGENE is a free cross-platform genome analysis suite. Multiple sequence alignment using MUSCLE 3,4 and KAlign; HMM profiles build and search, based on the source of HMMER 2 and HMMER 3; PCR Primers design using Primer 3; Protein secondary structure prediction using GOR IV and PSIPRED; Phylogenetic analysis with Phylip; Search for restriction enzymes and integration with REBASE; Extremely fast repeat finder; DNA reference assembly using Bowtie; Search for transcription factor binding sites using SITECON; Protein back translation; ORF finder; Complete Smith-Waterman algorithm implementation; Comparing genomes using dotplot view.
pcr on Wikipedia