-
1
-
-
81855183787
-
Disease-associated epigenetic changes in monozygotic twins discordant for schizophrenia and bipolar disorder
-
Dempster EL, Pidsley R, Schalkwyk LC, Owens S, Georgiades A, Kane F, et al. Disease-associated epigenetic changes in monozygotic twins discordant for schizophrenia and bipolar disorder. Hum Mol Genet. 2011;20:4786-96.
-
(2011)
Hum Mol Genet
, vol.20
, pp. 4786-4796
-
-
Dempster, E.L.1
Pidsley, R.2
Schalkwyk, L.C.3
Owens, S.4
Georgiades, A.5
Kane, F.6
Kalidindi, S.7
Picchioni, M.8
Kravariti, E.9
Toulopoulou, T.10
Murray, R.M.11
Mill, J.12
-
2
-
-
79960927422
-
Increased methylation variation in epigenetic domains across cancer types
-
Hansen KD, Timp W, Bravo HC, Sabunciyan S, Langmead B, McDonald OG, et al. Increased methylation variation in epigenetic domains across cancer types. Nat Genet. 2011;43:768-75.
-
(2011)
Nat Genet
, vol.43
, pp. 768-775
-
-
Hansen, K.D.1
Timp, W.2
Bravo, H.C.3
Sabunciyan, S.4
Langmead, B.5
McDonald, O.G.6
Wen, B.7
Wu, H.8
Liu, Y.9
Diep, D.10
Briem, E.11
Zhang, K.12
Irizarry, R.A.13
Feinberg, A.P.14
-
3
-
-
27144500218
-
Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis
-
Meissner A, Gnirke A, Bell GW, Ramsahoye B, Lander ES, Jaenisch R. Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis. Nucleic Acids Res. 2005;33:5868-77.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 5868-5877
-
-
Meissner, A.1
Gnirke, A.2
Bell, G.W.3
Ramsahoye, B.4
Lander, E.S.5
Jaenisch, R.6
-
4
-
-
77954112489
-
Methods in DNA methylation profiling
-
Zuo T, Tycko B, Liu TM, Lin JJ, Huang TH. Methods in DNA methylation profiling. Epigenomics. 2009;1:331-45.
-
(2009)
Epigenomics
, vol.1
, pp. 331-345
-
-
Zuo, T.1
Tycko, B.2
Liu, T.M.3
Lin, J.J.4
Huang, T.H.5
-
5
-
-
77957951913
-
Whole-genome DNA methylation profiling using MethylCap-seq
-
Brinkman AB, Simmer F, Ma K, Kaan A, Zhu J, Stunnenberg HG. Whole-genome DNA methylation profiling using MethylCap-seq. Methods. 2010;52:232-6.
-
(2010)
Methods
, vol.52
, pp. 232-236
-
-
Brinkman, A.B.1
Simmer, F.2
Ma, K.3
Kaan, A.4
Zhu, J.5
Stunnenberg, H.G.6
-
6
-
-
78349243997
-
Advances in genome-wide DNA methylation analysis
-
Gupta R, Nagarajan A, Wajapeyee N. Advances in genome-wide DNA methylation analysis. Biotechniques. 2010;49:iii-xi.
-
(2010)
Biotechniques
, vol.49
, pp. 3-11
-
-
Gupta, R.1
Nagarajan, A.2
Wajapeyee, N.3
-
7
-
-
77249137168
-
Principles and challenges of genomewide DNA methylation analysis
-
Laird PW. Principles and challenges of genomewide DNA methylation analysis. Nat Rev Genet. 2010;11:191-203.
-
(2010)
Nat Rev Genet
, vol.11
, pp. 191-203
-
-
Laird, P.W.1
-
8
-
-
80053304450
-
High density DNA methylation array with single CpG site resolution
-
Bibikova M, Barnes B, Tsan C, Ho V, Klotzle B, Le JM, et al. High density DNA methylation array with single CpG site resolution. Genomics. 2011;98:288-95.
-
(2011)
Genomics
, vol.98
, pp. 288-295
-
-
Bibikova, M.1
Barnes, B.2
Tsan, C.3
Ho, V.4
Klotzle, B.5
Le, J.M.6
Delano, D.7
Zhang, L.8
Schroth, G.P.9
Gunderson, K.L.10
Fan, J.B.11
Shen, R.12
-
9
-
-
79958754527
-
Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome
-
Sandoval J, Heyn H, Moran S, Serra-Musach J, Pujana MA, Bibikova M, et al. Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome. Epigenetics. 2011;6:692-702.
-
(2011)
Epigenetics
, vol.6
, pp. 692-702
-
-
Sandoval, J.1
Heyn, H.2
Moran, S.3
Serra-Musach, J.4
Pujana, M.A.5
Bibikova, M.6
Esteller, M.7
-
10
-
-
59149084538
-
The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores
-
Irizarry RA, Ladd-Acosta C, Wen B, Wu Z, Montano C, Onyango P, et al. The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores. Nat Genet. 2009;41:178-86.
-
(2009)
Nat Genet
, vol.41
, pp. 178-186
-
-
Irizarry, R.A.1
Ladd-Acosta, C.2
Wen, B.3
Wu, Z.4
Montano, C.5
Onyango, P.6
Cui, H.7
Gabo, K.8
Rongione, M.9
Webster, M.10
Ji, H.11
Potash, J.B.12
Sabunciyan, S.13
Feinberg, A.P.14
-
11
-
-
84856728415
-
Polish Pediatric Leukemia Lymphoma Study Group: DNA methylation pattern is altered in childhood T-cell acute lymphoblastic leukemia patients as compared with normal thymic subsets: insights into CpG island methylator phenotype in T-ALL
-
Kraszewska MD, Dawidowska M, Larmonie NS, Kosmalska M, Sedek Ł, Szczepaniak M, et al. Polish Pediatric Leukemia Lymphoma Study Group: DNA methylation pattern is altered in childhood T-cell acute lymphoblastic leukemia patients as compared with normal thymic subsets: insights into CpG island methylator phenotype in T-ALL. Leukemia. 2012;26:367-71.
-
(2012)
Leukemia
, vol.26
, pp. 367-371
-
-
Kraszewska, M.D.1
Dawidowska, M.2
Larmonie, N.S.3
Kosmalska, M.4
Sedek, L.5
Szczepaniak, M.6
Grzeszczak, W.7
Langerak, A.W.8
Szczepański, T.9
Witt, M.10
-
12
-
-
84874353239
-
Discovery of cross-reactive probes and polymorphic CpGs in the Illumina Infinium HumanMethylation450 microarray
-
Chen YA, Lemire M, Choufani S, Butcher DT, Grafodatskaya D, Zanke BW, et al. Discovery of cross-reactive probes and polymorphic CpGs in the Illumina Infinium HumanMethylation450 microarray. Epigenetics. 2013;8:203-9.
-
(2013)
Epigenetics
, vol.8
, pp. 203-209
-
-
Chen, Y.A.1
Lemire, M.2
Choufani, S.3
Butcher, D.T.4
Grafodatskaya, D.5
Zanke, B.W.6
Gallinger, S.7
Hudson, T.J.8
Weksberg, R.9
-
13
-
-
84883703352
-
DNA methylation contributes to natural human variation
-
Heyn H, Moran S, Hernando-Herraez I, Sayols S, Gomez A, Sandoval J, et al. DNA methylation contributes to natural human variation. Genome Res. 2013;23:1363-72.
-
(2013)
Genome Res
, vol.23
, pp. 1363-1372
-
-
Heyn, H.1
Moran, S.2
Hernando-Herraez, I.3
Sayols, S.4
Gomez, A.5
Sandoval, J.6
Monk, D.7
Hata, K.8
Marques-Bonet, T.9
Wang, L.10
Esteller, M.11
-
14
-
-
84880829314
-
Detection of MGMT, RASSF1A, p15INK4B, and p14ARF promoter methylation in circulating tumor-derived DNA of central nervous system cancer patients
-
Majchrzak-Celińska A, Paluszczak J, Kleszcz R, Magiera M, Barciszewska AM, Nowak S, et al. Detection of MGMT, RASSF1A, p15INK4B, and p14ARF promoter methylation in circulating tumor-derived DNA of central nervous system cancer patients. J Appl Genet. 2013;54:335-44.
-
(2013)
J Appl Genet
, vol.54
, pp. 335-344
-
-
Majchrzak-Celińska, A.1
Paluszczak, J.2
Kleszcz, R.3
Magiera, M.4
Barciszewska, A.M.5
Nowak, S.6
Baer-Dubowska, W.7
-
15
-
-
84939954290
-
Aberrant methylation of ERBB pathway genes in sporadic colorectal cancer
-
Szmida E, Karpiński P, Leszczynski P, Sedziak T, Kielan W, Ostasiewicz P, et al. Aberrant methylation of ERBB pathway genes in sporadic colorectal cancer. J Appl Genet. 2015;56:185-92.
-
(2015)
J Appl Genet
, vol.56
, pp. 185-192
-
-
Szmida, E.1
Karpiński, P.2
Leszczynski, P.3
Sedziak, T.4
Kielan, W.5
Ostasiewicz, P.6
Sasiadek, M.M.7
-
16
-
-
84874396923
-
Additional annotation enhances potential for biologically-relevant analysis of the Illumina Infinium HumanMethylation450 BeadChip array
-
Price ME, Cotton AM, Lam LL, Farré P, Emberly E, Brown CJ, et al. Additional annotation enhances potential for biologically-relevant analysis of the Illumina Infinium HumanMethylation450 BeadChip array. Epigenetics Chromatin. 2013;6:4.
-
(2013)
Epigenetics Chromatin
, vol.6
, pp. 4
-
-
Price, M.E.1
Cotton, A.M.2
Lam, L.L.3
Farré, P.4
Emberly, E.5
Brown, C.J.6
Robinson, W.P.7
Kobor, M.S.8
-
17
-
-
82455206314
-
Evaluation of the infinium methylation 450K technology
-
Dedeurwaerder S, Defrance M, Calonne E, Denis H, Sotiriou C, Fuks F. Evaluation of the infinium methylation 450K technology. Epigenomics. 2011;3:771-84.
-
(2011)
Epigenomics
, vol.3
, pp. 771-784
-
-
Dedeurwaerder, S.1
Defrance, M.2
Calonne, E.3
Denis, H.4
Sotiriou, C.5
Fuks, F.6
-
18
-
-
84893852621
-
A comprehensive overview of Infinium HumanMethylation450 data processing
-
Dedeurwaerder S, Defrance M, Bizet M, Calonne E, Bontempi G, Fuks F. A comprehensive overview of Infinium HumanMethylation450 data processing. Brief Bioinform. 2014;15:929-41.
-
(2014)
Brief Bioinform
, vol.15
, pp. 929-941
-
-
Dedeurwaerder, S.1
Defrance, M.2
Bizet, M.3
Calonne, E.4
Bontempi, G.5
Fuks, F.6
-
19
-
-
84892645283
-
Reducing the risk of false discovery enabling identification of biologically significant genome-wide methylation status using the HumanMethylation450 array
-
Naeem H, Wong NC, Chatterton Z, Hong MK, Pedersen JS, Corcoran NM, et al. Reducing the risk of false discovery enabling identification of biologically significant genome-wide methylation status using the HumanMethylation450 array. BMC Genomics. 2014;15:51.
-
(2014)
BMC Genomics
, vol.15
, pp. 51
-
-
Naeem, H.1
Wong, N.C.2
Chatterton, Z.3
Hong, M.K.4
Pedersen, J.S.5
Corcoran, N.M.6
Hovens, C.M.7
Macintyre, G.8
-
20
-
-
84862266444
-
Complete pipeline for Infinium(®) Human Methylation 450K BeadChip data processing using subset quantile normalization for accurate DNA methylation estimation
-
Touleimat N, Tost J. Complete pipeline for Infinium(®) Human Methylation 450K BeadChip data processing using subset quantile normalization for accurate DNA methylation estimation. Epigenomics. 2012;4:325-3241.
-
(2012)
Epigenomics
, vol.4
, pp. 325-3241
-
-
Touleimat, N.1
Tost, J.2
-
21
-
-
65149089174
-
Genome-wide Insights into the patterns and determinants of fine-scale population structure in humans
-
Biswas S, Scheinfeldt LB, Akey JM. Genome-wide Insights into the patterns and determinants of fine-scale population structure in humans. Am J Hum Genet. 2009;84:641-50.
-
(2009)
Am J Hum Genet
, vol.84
, pp. 641-650
-
-
Biswas, S.1
Scheinfeldt, L.B.2
Akey, J.M.3
-
22
-
-
70450169678
-
Epigenetic profiling of somatic tissues from human autopsy specimens identifies tissue- and individual-specific DNA methylation patterns
-
Byun HM, Siegmund KD, Pan F, Weisenberger DJ, Kanel G, Laird PW, et al. Epigenetic profiling of somatic tissues from human autopsy specimens identifies tissue- and individual-specific DNA methylation patterns. Hum Mol Genet. 2009;24:4808-17.
-
(2009)
Hum Mol Genet
, vol.24
, pp. 4808-4817
-
-
Byun, H.M.1
Siegmund, K.D.2
Pan, F.3
Weisenberger, D.J.4
Kanel, G.5
Laird, P.W.6
Yang, A.S.7
-
23
-
-
84862173149
-
SWAN. Subset-quantile within array normalization for illumina infinium HumanMethylation450 BeadChips
-
Maksimovic J, Gordon L, Oshlack A. SWAN. Subset-quantile within array normalization for illumina infinium HumanMethylation450 BeadChips. Genome Biol. 2012;13:R44.
-
(2012)
Genome Biol
, vol.13
, pp. R44
-
-
Maksimovic, J.1
Gordon, L.2
Oshlack, A.3
-
24
-
-
84897548625
-
Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays
-
Aryee MJ, Jaffe AE, Corrada-Bravo H, Ladd-Acosta C, Feinberg AP, Hansen KD, et al. Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays. Bioinformatics. 2014;30:1363-9.
-
(2014)
Bioinformatics
, vol.30
, pp. 1363-1369
-
-
Aryee, M.J.1
Jaffe, A.E.2
Corrada-Bravo, H.3
Ladd-Acosta, C.4
Feinberg, A.P.5
Hansen, K.D.6
Irizarry, R.A.7
-
25
-
-
78649475003
-
Comparison of Β-value and M-value methods for quantifying methylation levels by microarray analysis
-
Du P, Zhang X, Huang CC, Jafari N, Kibbe WA, Hou L, et al. Comparison of Β-value and M-value methods for quantifying methylation levels by microarray analysis. BMC Bioinformatics. 2010;11:587.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 587
-
-
Du, P.1
Zhang, X.2
Huang, C.C.3
Jafari, N.4
Kibbe, W.A.5
Hou, L.6
Lin, S.M.7
-
26
-
-
84875737335
-
An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform
-
Marabita F, Almgren M, Lindholm ME, Ruhrmann S, Fagerström-Billai F, Jagodic M, et al. An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform. Epigenetics. 2013;8:333-46.
-
(2013)
Epigenetics
, vol.8
, pp. 333-346
-
-
Marabita, F.1
Almgren, M.2
Lindholm, M.E.3
Ruhrmann, S.4
Fagerström-Billai, F.5
Jagodic, M.6
Sundberg, C.J.7
Ekström, T.J.8
Teschendorff, A.E.9
Tegnér, J.10
Gomez-Cabrero, D.11
-
27
-
-
0345822598
-
The positive false discovery rate: a Bayesian interpretation and the q-value
-
Storey JD. The positive false discovery rate: a Bayesian interpretation and the q-value. Ann Stat. 2003;31:2013-35.
-
(2003)
Ann Stat
, vol.31
, pp. 2013-2035
-
-
Storey, J.D.1
-
28
-
-
0042424602
-
Statistical significance for genome-wide studies
-
Storey JD, Tibshirani R. Statistical significance for genome-wide studies. Proc Natl Acad Sci U S A. 2003;100:9440-5.
-
(2003)
Proc Natl Acad Sci U S A
, vol.100
, pp. 9440-9445
-
-
Storey, J.D.1
Tibshirani, R.2
-
29
-
-
33751505540
-
DNA methylation profiling of human chromosomes 6, 20 and 22
-
Eckhardt F, Lewin J, Cortese R, Rakyan VK, Attwood J, Burger M, et al. DNA methylation profiling of human chromosomes 6, 20 and 22. Nat Genet. 2006;38:1378-85.
-
(2006)
Nat Genet
, vol.38
, pp. 1378-1385
-
-
Eckhardt, F.1
Lewin, J.2
Cortese, R.3
Rakyan, V.K.4
Attwood, J.5
Burger, M.6
Burton, J.7
Cox, T.V.8
Davies, R.9
Down, T.A.10
Haefliger, C.11
Horton, R.12
Howe, K.13
Jackson, D.K.14
Kunde, J.15
Koenig, C.16
Liddle, J.17
Niblett, D.18
Otto, T.19
Pettett, R.20
Seemann, S.21
Thompson, C.22
West, T.23
Rogers, J.24
Olek, A.25
Berlin, K.26
Beck, S.27
more..
-
30
-
-
0036081355
-
Gene Expression Omnibus: NCBI gene expression and hybridization array data repository
-
Edgar R, Domrachev M, Lash AE. Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res. 2002;30:207-10.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 207-210
-
-
Edgar, R.1
Domrachev, M.2
Lash, A.E.3
|