title: Front-end genomics: using an alternative approach for the recovery of high-quality DNA from core needle biopsies.
abstract: OBJECTIVE
  Determine whether a simple prewash step will provide adequate amounts of high-quality DNA from core needle biopsies for molecular sequencing studies.
  
  
  METHODS
  The quantitative and qualitative metrics of DNA recovered from core needle biopsies processed either by 1) formalin fixation and paraffin embedding (FFPE), 2) cells recovered after the core needle biopsy was washed, and 3) frozen sections of the core needle biopsy tissue were evaluated and compared to one another.
  
  
  RESULTS
  Fairly equivalent amounts of DNA can be obtained from cells recovered from a prewash step relative to the FFPE and frozen section samples. The number of amplifiable DNA in the wash sample was greater than that from the FFPE samples. The average molecular size of DNA in the wash sample was greater than that of both the FFPE and frozen samples.
  
  
  CONCLUSIONS
  Although more starting material in terms of the number of cells was present in both the FFPE and frozen section samples than the wash samples, equivalent to better results were obtained from the latter with regard to quality. This approach may be a means to better aliquot the diminutive amounts of tissue associated with core needle biopsies, allowing dissociated cells to be dedicated for molecular studies while keeping the tissue intact for morphological studies.
authors: Department of Pathology and Anatomical Sciences, University at Buffalo, Buffalo, New York, USA.
authors: Wilfrido D
authors: WD
authors: Mojica
authors: Department of Pathology and Anatomical Sciences, University at Buffalo, Buffalo, New York, USA.
authors: Tieying
authors: T
authors: Hou
authors: Department of Medicine, University at Buffalo, Buffalo, New York, USA.
authors: Don
authors: D
authors: Sykes
authors: Department of Dermatology, University at Buffalo, Buffalo, New York, USA.
authors: Rama
authors: R
authors: Dey-Rao
mesh_terms: D062005:Biopsy, Large-Core Needle / Q000379:methods; D004247:DNA / Q000302:isolation & purification*; D005629:Frozen Sections / Q000379:methods; D023281:Genomics / Q000379:methods*; D006801:Humans; D017422:Sequence Analysis, DNA / Q000379:methods; D013048:Specimen Handling / Q000379:methods
chemical_list: D004247:DNA
keywords: DNA; FIXATION; MOLECULAR GENETICS