title: Effect of buffered formalin on amplification of DNA from paraffin wax embedded small biopsies using real-time PCR.
abstract: BACKGROUND
  The isolation of good quality DNA from routinely fixed and processed biopsy samples is crucial for the success of subsequent molecular analysis.
  
  
  OBJECTIVE
  To compare the amount of beta actin DNA extracted from upper gastrointestinal tract biopsies fixed in buffered and unbuffered formalin.
  
  
  METHODS
  Amounts of beta actin DNA extracted from forceps biopsies of the upper gastrointestinal tract fixed in unbuffered (n = 22) and buffered formalin (n = 16) were estimated by quantitative real-time polymerase chain reaction.
  
  
  RESULTS
  The yield of beta actin DNA was significantly higher in biopsies fixed in buffered formalin than in those fixed in unbuffered formalin (median 2.8 x 10(4) and 5.3 x 10(2) DNA molecules, respectively; p < 0.005). Furthermore, fixation in buffered formalin led to a more reproducible DNA extraction, as indicated by the coefficient of variation (1.0 and 2.2, respectively).
  
  
  CONCLUSIONS
  This study indicates that tissue samples should be fixed in buffered formalin to facilitate the use of molecular pathology analysis in routine biopsy material.
authors.affiliation: Laboratory for Pathology of Infectious Diseases, Cantonal Institute of Pathology, 4410 Liestal Switzerland.
authors.forename: V
authors.initials: V
authors.lastname: Zsikla
authors.forename: M
authors.initials: M
authors.lastname: Baumann
authors.forename: G
authors.initials: G
authors.lastname: Cathomas
mesh_terms: D000199:Actins / Q000235:genetics*; D001706:Biopsy; D002021:Buffers; D004247:DNA / Q000032:analysis*; D004064:Digestive System / Q000737:chemistry; D005557:Formaldehyde; D006801:Humans; D016612:Paraffin Embedding; D016133:Polymerase Chain Reaction / Q000379:methods*; D016707:Tissue Fixation / Q000379:methods
chemical_list: D000199:Actins; D002021:Buffers; D005557:Formaldehyde; D004247:DNA