Electronic Journal Article
@Article
Zeitschriftenartikel in einem e-Journal



Show entries of:

this year (2019) | last year (2018) | two years ago (2017) | Notes URL

Action:

login to update

Options:








Author, Editor

Author(s):

Bock, Christoph
Paulsen, Martina
Tierling, Sascha
Mikeska, Thomas
Lengauer, Thomas
Walter, Jörn

dblp
dblp
dblp
dblp
dblp
dblp

Not MPG Author(s):

Paulsen, Martina
Tierling, Sascha
Mikeska, Thomas
Walter, Jörn

BibTeX cite key*:

Bock2006b

Title

Title*:

CpG Island Methylation in Human Lymphocytes Is Highly Correlated with DNA Sequence, Repeats, and Predicted DNA Structure


Bock et al. (2006) - CpG Island Methylation in Human Lymphocytes.pdf (571.4 KB)

Journal

Journal Title*:

PLoS Genetics

Journal's URL:


Download URL
for the article:

http://genetics.plosjournals.org/archive/1553-7404/2/3/pdf/10.1371_journal.pgen.0020026-L.pdf
dx.doi.org/10.1371/journal.pgen.0020026

Language:

English

Publisher

Publisher's
Name:

Public Library of Science

Publisher's URL:


Publisher's
Address:


ISSN:

1553-7390

Vol, No, Year, pp.

Volume:

2

Number:

3

Month:


Year*:

2006

Pages:

0243-0252

Number of VG Pages:

10

Sequence Number:

e26

DOI:


Abstract, Links, (C)

Note:


(LaTeX) Abstract:

CpG island methylation plays an important role in epigenetic gene control during mammalian development and is frequently altered in disease situations such as cancer. The majority of CpG islands is normally unmethylated, but a sizeable fraction is prone to become methylated in various cell types and pathological situations. The goal of this study is to show that a computational epigenetics approach can discriminate between CpG islands that are prone to methylation from those that remain unmethylated. We develop a bioinformatics scoring and prediction method on the basis of a set of 1,184 DNA attributes, which refer to sequence, repeats, predicted structure, CpG islands, genes, predicted binding sites, conservation, and single nucleotide polymorphisms. These attributes are scored on 132 CpG islands across the entire human Chromosome 21, whose methylation status was previously established for normal human lymphocytes. Our results show that three groups of DNA attributes, namely certain sequence patterns, specific DNA repeats, and a particular DNA structure, are each highly correlated with CpG island methylation (correlation coefficients of 0.64, 0.66, and 0.49, respectively). We predicted, and subsequently experimentally examined 12 CpG islands from human Chromosome 21 with unknown methylation patterns and found more than 90% of our predictions to be correct. In addition, we applied our prediction method to analyzing Human Epigenome Project methylation data on human Chromosome 6 and again observed high prediction accuracy. In summary, our results suggest that DNA composition of CpG islands (sequence, repeats, and structure) plays a significant role in predisposing CpG islands for DNA methylation. This finding may have a strong impact on our understanding of changes in CpG island methylation in development and disease.

URL for the Abstract:


Categories / Keywords:


HyperLinks / References / URLs:


Copyright Message:


Personal Comments:


Download
Access Level:

Public

Correlation

MPG Unit:

Max-Planck-Institut für Informatik



MPG Subunit:

Computational Biology and Applied Algorithmics

Audience:

Expert

Appearance:

MPII WWW Server, MPII FTP Server, MPG publications list, university publications list, working group publication list, Fachbeirat, VG Wort



BibTeX Entry:

@MISC{Bock2006b,
AUTHOR = {Bock, Christoph and Paulsen, Martina and Tierling, Sascha and Mikeska, Thomas and Lengauer, Thomas and Walter, J{\"o}rn},
TITLE = {{CpG} Island Methylation in Human Lymphocytes Is Highly Correlated with {DNA} Sequence, Repeats, and Predicted {DNA} Structure},
JOURNAL = {PLoS Genetics},
PUBLISHER = {Public Library of Science},
YEAR = {2006},
NUMBER = {3},
VOLUME = {2},
PAGES = {0243--0252},
ISBN = {1553-7390},
}


Entry last modified by Joachim Büch, 04/17/2007
Show details for Edit History (please click the blue arrow to see the details)Edit History (please click the blue arrow to see the details)
Hide details for Edit History (please click the blue arrow to see the details)Edit History (please click the blue arrow to see the details)

Editor(s)
Christoph Bock
Created
11/07/2006 07:10:18 PM
Revisions
6.
5.
4.
3.
2.
Editor(s)
Joachim Büch
Christine Kiesel
Christine Kiesel
Christine Kiesel
Christine Kiesel
Edit Dates
17.04.2007 09:38:11
26.02.2007 16:07:17
20.02.2007 16:00:16
20.02.2007 15:59:19
08/11/2006 10:18:18
Show details for Attachment SectionAttachment Section
Hide details for Attachment SectionAttachment Section
Bock et al. (2006) - CpG Island Methylation in Human Lymphocytes.pdf
View attachments here: