title: An accessible database for mouse and human whole transcriptome qPCR primers.
abstract: BACKGROUND
  Real time quantitative polymerase chain reaction (qPCR) is an important tool in quantitative studies of DNA and RNA molecules; especially in transcriptome studies, where different primer combinations allow identification of specific transcripts such as splice variants or precursor messenger RNA. Several softwares that implement various rules for optimal primer design are available. Nevertheless, as designing qPCR primers needs to be done manually, the repeated task is tedious, time consuming and prone to errors.
  
  
  RESULTS
  We used a set of rules to automatically design all possible exon-exon and intron-exon junctions in the human and mouse transcriptomes. The resulting database is included as a track in the UCSC genome browser, making it widely accessible and easy to use.
  
  
  BACKGROUND
  The database is available from the UCSC genome browser (http://genome.ucsc.edu/), track name 'Whole Transcriptome qPCR Primers' for the hg19 (Human) and mm10 (Mouse) genome versions. Batch query is available in the following: http://www.weizmann.ac.il/complex/compphys/software/Amit/primers/batch_query_qpcr_primers.htm
  
  
  BACKGROUND
  amit.zeisel@weizmann.ac.il or eytan.domany@weizmann.ac.il
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Department of Physics of Complex Systems, Weizmann Institute of Science, Rehovot 76100, Israel. amit.zeisel@weizmann.ac.il
authors.forename: Amit
authors.initials: A
authors.lastname: Zeisel
authors.forename: Assif
authors.initials: A
authors.lastname: Yitzhaky
authors.forename: Noa
authors.initials: N
authors.lastname: Bossel Ben-Moshe
authors.forename: Eytan
authors.initials: E
authors.lastname: Domany
mesh_terms: D000818:Animals; D017931:DNA Primers / Q000235:genetics*; D030541:Databases, Genetic; D005091:Exons; D006801:Humans; D007438:Introns; D051379:Mice; D060888:Real-Time Polymerase Chain Reaction; D012984:Software; D059467:Transcriptome
chemical_list: D017931:DNA Primers