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Volume 6 Supplement 6

Beyond the Genome 2012

  • Poster presentation
  • Open Access

Massively parallel sequencing of formalin-fixed paraffin-embedded tissues

  • Rachel L Erlich1,
  • Emanuele Palescandolo1,
  • Robert T Jones1,
  • Ashwini Sunkavalli1,
  • Alina Raza1,
  • Matthew Ducar1,
  • Charles Hatton1,
  • Christina Go1,
  • Christine Roden1,
  • Megan Hanna1,
  • Adri Mills1,
  • Ravali Adusumilli1,
  • Prateek Kumar1,
  • Priscilla K Brastianos1,
  • Matthew L Meyerson1,
  • William C Hahn1,
  • Laura E MacConaill1 and
  • Paul Van Hummelen1
BMC Proceedings20126(Suppl 6):P40

Published: 1 October 2012


Public HealthNucleic AcidParaffinCommon MethodParallel Sequencing

Formalin fixation followed by paraffin embedment (FFPE) is the most common method of preserving resected tissues. FFPEs can be easily stored, retrieved and processed for further analysis when compared to the logistical complications of processing fresh frozen (FF) material. Conversely, they may not be ideal for sequencing because of the nucleic acid fragmentation and artifacts introduced by fixation. Here we report our efforts in performing next-generation sequencing on more than 70 specimens comprising >40 FFPE samples, from low to high quality, and compared the performance of FFPE, FF and commercially available cell lines.

Authors’ Affiliations

Dana-Farber Cancer Institute, Boston, USA


© Erlich et al; licensee BioMed Central Ltd. 2012

This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.