Library-free methylation sequencing with bisulfite padlock probes

Nat Methods. 2012 Feb 5;9(3):270-2. doi: 10.1038/nmeth.1871.


Targeted quantification of DNA methylation allows for interrogation of the most informative loci across many samples quickly and cost-effectively. Here we report improved bisulfite padlock probes (BSPPs) with a design algorithm to generate efficient padlock probes, a library-free protocol that dramatically reduces sample-preparation cost and time and is compatible with automation, and an efficient bioinformatics pipeline to accurately obtain both methylation levels and genotypes from sequencing of bisulfite-converted DNA.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Sequence
  • DNA / chemistry*
  • DNA / genetics*
  • DNA Probes / chemistry*
  • DNA Probes / genetics*
  • Gene Library
  • Molecular Sequence Data
  • Polymerase Chain Reaction / methods*
  • Sequence Analysis, DNA / methods*
  • Sulfites / chemistry*


  • DNA Probes
  • Sulfites
  • DNA
  • hydrogen sulfite