Literature DB >> 12095267

Methylation sequencing from limiting DNA: embryonic, fixed, and microdissected cells.

Douglas S Millar1, Peter M Warnecke, John R Melki, Susan J Clark.   

Abstract

It is frequently useful to determine the methylation state of samples containing limited amounts of DNA such as from embryos, or from fixed tissue samples in which DNA is degraded or difficult to isolate. By modification of the standard protocols for DNA preparation and bisulfite treatment, it is possible to obtain DNA methylation sequence data for such samples. We present methods for bisulfite treatment of embryos, fixed sections, and samples obtained by laser capture microdissection, and discuss the additional experimental considerations required when working with small numbers of cells or degraded DNA samples.

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Year:  2002        PMID： 12095267     DOI： 10.1016/s1046-2023(02)00061-0

Source DB:  PubMed          Journal:  Methods        ISSN： 1046-2023            Impact factor:   3.608


  16 in total

1.  Molecular barcodes detect redundancy and contamination in hairpin-bisulfite PCR.

Authors:  Brooks E Miner; Reinhard J Stöger; Alice F Burden; Charles D Laird; R Scott Hansen
Journal:  Nucleic Acids Res       Date:  2004-09-30       Impact factor: 16.971

2.  Meiotic and epigenetic defects in Dnmt3L-knockout mouse spermatogenesis.

Authors:  Kylie E Webster; Moira K O'Bryan; Stephen Fletcher; Pauline E Crewther; Ulla Aapola; Jeff Craig; Dion K Harrison; Hnin Aung; Nawapen Phutikanit; Robert Lyle; Sarah J Meachem; Stylianos E Antonarakis; David M de Kretser; Mark P Hedger; Pärt Peterson; Bernard J Carroll; Hamish S Scott
Journal:  Proc Natl Acad Sci U S A       Date:  2005-03-07       Impact factor: 11.205

3.  A methylation sensitive dot blot assay (MS-DBA) for the quantitative analysis of DNA methylation in clinical samples.

Authors:  G Clément; J Benhattar
Journal:  J Clin Pathol       Date:  2005-02       Impact factor: 3.411

4.  Pancreatic β cell identity is maintained by DNA methylation-mediated repression of Arx.

Authors:  Sangeeta Dhawan; Senta Georgia; Shuen-Ing Tschen; Guoping Fan; Anil Bhushan
Journal:  Dev Cell       Date:  2011-04-19       Impact factor: 12.270

5.  Pioneer factor interactions and unmethylated CpG dinucleotides mark silent tissue-specific enhancers in embryonic stem cells.

Authors:  Jian Xu; Scott D Pope; Ali R Jazirehi; Joanne L Attema; Peter Papathanasiou; Jason A Watts; Kenneth S Zaret; Irving L Weissman; Stephen T Smale
Journal:  Proc Natl Acad Sci U S A       Date:  2007-07-18       Impact factor: 11.205

Review 6.  Epigenetic alterations in acute kidney injury.

Authors:  Karol Bomsztyk; Oleg Denisenko
Journal:  Semin Nephrol       Date:  2013-07       Impact factor: 5.299

7.  miR-29a and miR-29b contribute to pancreatic beta-cell-specific silencing of monocarboxylate transporter 1 (Mct1).

Authors:  Timothy J Pullen; Gabriela da Silva Xavier; Gavin Kelsey; Guy A Rutter
Journal:  Mol Cell Biol       Date:  2011-06-06       Impact factor: 4.272

8.  Development of functional human embryonic stem cell-derived neurons in mouse brain.

Authors:  Alysson R Muotri; Kinichi Nakashima; Nicolas Toni; Vladislav M Sandler; Fred H Gage
Journal:  Proc Natl Acad Sci U S A       Date:  2005-12-13       Impact factor: 11.205

9.  DNA methylation directs functional maturation of pancreatic β cells.

Authors:  Sangeeta Dhawan; Shuen-Ing Tschen; Chun Zeng; Tingxia Guo; Matthias Hebrok; Aleksey Matveyenko; Anil Bhushan
Journal:  J Clin Invest       Date:  2015-06-22       Impact factor: 14.808

10.  Reversing HOXA9 oncogene activation by PI3K inhibition: epigenetic mechanism and prognostic significance in human glioblastoma.

Authors:  Bruno M Costa; Justin S Smith; Ying Chen; Justin Chen; Heidi S Phillips; Kenneth D Aldape; Giuseppe Zardo; Janice Nigro; C David James; Jane Fridlyand; Rui M Reis; Joseph F Costello
Journal:  Cancer Res       Date:  2010-01-12       Impact factor: 12.701
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