PrimerBank: a resource of human and mouse PCR primer pairs for gene expression detection and quantification

Abstract

PrimerBank (http://pga.mgh.harvard.edu/primerbank/) is a public resource for the retrieval of human and mouse primer pairs for gene expression analysis by PCR and Quantitative PCR (QPCR). A total of 306 800 primers covering most known human and mouse genes can be accessed from the PrimerBank database, together with information on these primers such as Tm, location on the transcript and amplicon size. For each gene, at least one primer pair has been designed and in many cases alternative primer pairs exist. Primers have been designed to work under the same PCR conditions, thus facilitating high-throughput QPCR. There are several ways to search for primers for the gene(s) of interest, such as by: GenBank accession number, NCBI protein accession number, NCBI gene ID, PrimerBank ID, NCBI gene symbol or gene description (keyword). In all, 26 855 primer pairs covering most known mouse genes have been experimentally validated by QPCR, agarose gel analysis, sequencing and BLAST, and all validation data can be freely accessed from the PrimerBank web site.

Ether lipid generating enzyme AGPS alters the balance of structural and signaling lipids to fuel cancer pathogenicity

“…qPCR was performed using the manufacturer's protocol for Fischer Maxima SYBRgreen, with 10 μM primer concentrations. Primer sequences were derived from Primer Bank (27).…”

Lipin-2 Reduces Proinflammatory Signaling Induced by Saturated Fatty Acids in Macrophages

“…First strand cDNA was synthesized from 2 g of total RNA using the Transcriptor First Strand cDNA synthesis kit (Roche Applied Science) and random primers. The cDNA was amplified by real time PCR using the KAPA SYBR master mix quantitative PCR (Roche Applied Science) and specific primers for each gene (24). Sequences of the primers used for murine genes were as follows: Cyclophilin, 5Ј-TGGAAGAGCCAAGACAG-ACA-3Ј and 5Ј-GCCGGAGTCGACAATGAT-3Ј; Lpin1, 5Ј-CTCCGCTCCCGAGAGAAG-3Ј and 5Ј-TCATGTGCAAATC-CACGGACT-3Ј; Lpin1␣, 5Ј-GGTCCCCAGCCCCAGTC-CTT-3Ј and 5Ј-GCAGCCTGTGGCAATTCA-3Ј; Lpin1␤, 5Ј-CATGCTTCGGAAAGTCCTTCA-3Ј and 5Ј-GGTTATTCTT-TGGCGTCAACCT-5Ј; Lpin2, 5Ј-AGTTGACCCCATCACCG-TAG-3Ј and 5Ј-CCCAAAGCATCAGACTTGGT-3Ј; Lpin3, 5Ј-TGGAATTGGGATGACAAGGT-3Ј and 5Ј-CCCAAAGCAT-CAGACTTGGT-3Ј; Tnf␣, 5Ј-ACGGCATGGATCTCAAAA-GAC-3Ј and 5Ј-AGATAGCAAATCGGCTGACG-3Ј; Ccl2, 5Ј-A-GGTCCCATGTCATGCTTCTGG-3Ј and 5Ј-CTGCTGCTGG-TGATCCTCTTG-3Ј; and Il6, 5Ј-TAGTCCTTCCTACCCCA-ATTTCC-3Ј and 5Ј-TTGGTCCTTAGCCACTCCTTC-5Ј.…”

A Novel Transient Glutamatergic Population Migrating from the Pallial–Subpallial Boundary Contributes to Neocortical Development

“…Real-time PCR was performed on a Roche LightCycler according to the manufacturer's instructions for the SYBR Green detection kit. Primers were designed using PrimerBank (Spandidos et al, 2010) and Primer3 (Rozen and Skaletsky, 2000). The primers were verified for specificity with Primer-Blast from NCBI.…”