Library-free Methylation Sequencing with Bisulfite Padlock Probes

We previously developed Bisulfite Padlock Probes (BSPPs) for the specific and parallel digital quantification of DNA methylation(1). Here we report the second-generation of BSPPs with a design algorithm to generate more efficient padlock probes, a library-free protocol that dramatically reduces the...

Descripción completa

Detalles Bibliográficos
Autores principales: Diep, Dinh, Plongthongkum, Nongluk, Gore, Athurva, Fung, Ho-Lim, Shoemaker, Robert, Zhang, Kun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2012
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3461232/
https://www.ncbi.nlm.nih.gov/pubmed/22306810
http://dx.doi.org/10.1038/nmeth.1871
_version_ 1782245053783080960
author Diep, Dinh
Plongthongkum, Nongluk
Gore, Athurva
Fung, Ho-Lim
Shoemaker, Robert
Zhang, Kun
author_facet Diep, Dinh
Plongthongkum, Nongluk
Gore, Athurva
Fung, Ho-Lim
Shoemaker, Robert
Zhang, Kun
author_sort Diep, Dinh
collection PubMed
description We previously developed Bisulfite Padlock Probes (BSPPs) for the specific and parallel digital quantification of DNA methylation(1). Here we report the second-generation of BSPPs with a design algorithm to generate more efficient padlock probes, a library-free protocol that dramatically reduces the time and cost of sample preparation and is compatible with automation, and an efficient bioinformatics pipeline that accurately obtains both methylation levels and genotypes from bisulfite sequencing data.
format Online
Article
Text
id pubmed-3461232
institution National Center for Biotechnology Information
language English
publishDate 2012
record_format MEDLINE/PubMed
spelling pubmed-34612322012-09-30 Library-free Methylation Sequencing with Bisulfite Padlock Probes Diep, Dinh Plongthongkum, Nongluk Gore, Athurva Fung, Ho-Lim Shoemaker, Robert Zhang, Kun Nat Methods Article We previously developed Bisulfite Padlock Probes (BSPPs) for the specific and parallel digital quantification of DNA methylation(1). Here we report the second-generation of BSPPs with a design algorithm to generate more efficient padlock probes, a library-free protocol that dramatically reduces the time and cost of sample preparation and is compatible with automation, and an efficient bioinformatics pipeline that accurately obtains both methylation levels and genotypes from bisulfite sequencing data. 2012-02-05 /pmc/articles/PMC3461232/ /pubmed/22306810 http://dx.doi.org/10.1038/nmeth.1871 Text en Users may view, print, copy, download and text and data- mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use: http://www.nature.com/authors/editorial_policies/license.html#terms
spellingShingle Article
Diep, Dinh
Plongthongkum, Nongluk
Gore, Athurva
Fung, Ho-Lim
Shoemaker, Robert
Zhang, Kun
Library-free Methylation Sequencing with Bisulfite Padlock Probes
title Library-free Methylation Sequencing with Bisulfite Padlock Probes
title_full Library-free Methylation Sequencing with Bisulfite Padlock Probes
title_fullStr Library-free Methylation Sequencing with Bisulfite Padlock Probes
title_full_unstemmed Library-free Methylation Sequencing with Bisulfite Padlock Probes
title_short Library-free Methylation Sequencing with Bisulfite Padlock Probes
title_sort library-free methylation sequencing with bisulfite padlock probes
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3461232/
https://www.ncbi.nlm.nih.gov/pubmed/22306810
http://dx.doi.org/10.1038/nmeth.1871
work_keys_str_mv AT diepdinh libraryfreemethylationsequencingwithbisulfitepadlockprobes
AT plongthongkumnongluk libraryfreemethylationsequencingwithbisulfitepadlockprobes
AT goreathurva libraryfreemethylationsequencingwithbisulfitepadlockprobes
AT fungholim libraryfreemethylationsequencingwithbisulfitepadlockprobes
AT shoemakerrobert libraryfreemethylationsequencingwithbisulfitepadlockprobes
AT zhangkun libraryfreemethylationsequencingwithbisulfitepadlockprobes

Ejemplares similares