-
1
-
-
34249337761
-
Perceptions of epigenetics
-
10.1038/nature05913, 17522671
-
Bird A. Perceptions of epigenetics. Nature 2007, 447(7143):396-398. 10.1038/nature05913, 17522671.
-
(2007)
Nature
, vol.447
, Issue.7143
, pp. 396-398
-
-
Bird, A.1
-
2
-
-
59149084538
-
The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores
-
10.1038/ng.298, 2729128, 19151715
-
Irizarry RA, et al. The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores. Nat Genet 2009, 41(2):178-186. 10.1038/ng.298, 2729128, 19151715.
-
(2009)
Nat Genet
, vol.41
, Issue.2
, pp. 178-186
-
-
Irizarry, R.A.1
-
3
-
-
72849117741
-
A species-generalized probabilistic model-based definition of CpG islands
-
2962567, 19777308
-
Irizarry RA, Wu H, Feinberg AP. A species-generalized probabilistic model-based definition of CpG islands. Mamm Genome 2009, 20(9-10):674-680. 2962567, 19777308.
-
(2009)
Mamm Genome
, vol.20
, Issue.9-10
, pp. 674-680
-
-
Irizarry, R.A.1
Wu, H.2
Feinberg, A.P.3
-
4
-
-
13844252820
-
Regulation of histone deacetylase activities
-
10.1002/jcb.20179, 15352162
-
Sengupta N, Seto E. Regulation of histone deacetylase activities. J Cell Biochem 2004, 93(1):57-67. 10.1002/jcb.20179, 15352162.
-
(2004)
J Cell Biochem
, vol.93
, Issue.1
, pp. 57-67
-
-
Sengupta, N.1
Seto, E.2
-
5
-
-
79960688508
-
DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines
-
10.1186/gb-2011-12-1-r10, 3091299, 21251332
-
Bell JT, et al. DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines. Genome Biol 2011, 12(1):R10. 10.1186/gb-2011-12-1-r10, 3091299, 21251332.
-
(2011)
Genome Biol
, vol.12
, Issue.1
-
-
Bell, J.T.1
-
6
-
-
77953223693
-
Abundant quantitative trait loci exist for DNA methylation and gene expression in human brain
-
10.1371/journal.pgen.1000952, 2869317, 20485568
-
Gibbs JR, et al. Abundant quantitative trait loci exist for DNA methylation and gene expression in human brain. PLoS Genet 2010, 6(5):e1000952. 10.1371/journal.pgen.1000952, 2869317, 20485568.
-
(2010)
PLoS Genet
, vol.6
, Issue.5
-
-
Gibbs, J.R.1
-
7
-
-
77649204292
-
Genetic control of individual differences in gene-specific methylation in human brain
-
10.1016/j.ajhg.2010.02.005, 2833385, 20215007
-
Zhang D, et al. Genetic control of individual differences in gene-specific methylation in human brain. Am J Hum Genet 2010, 86(3):411-419. 10.1016/j.ajhg.2010.02.005, 2833385, 20215007.
-
(2010)
Am J Hum Genet
, vol.86
, Issue.3
, pp. 411-419
-
-
Zhang, D.1
-
8
-
-
8844244726
-
Genetic inheritance of gene expression in human cell lines
-
10.1086/426461, 1182144, 15514893
-
Monks SA, et al. Genetic inheritance of gene expression in human cell lines. Am J Hum Genet 2004, 75(6):1094-1105. 10.1086/426461, 1182144, 15514893.
-
(2004)
Am J Hum Genet
, vol.75
, Issue.6
, pp. 1094-1105
-
-
Monks, S.A.1
-
9
-
-
69449084444
-
The relationship of DNA methylation with age, gender and genotype in twins and healthy controls
-
10.1371/journal.pone.0006767, 2747671, 19774229
-
Boks MP, et al. The relationship of DNA methylation with age, gender and genotype in twins and healthy controls. PLoS One 2009, 4(8):e6767. 10.1371/journal.pone.0006767, 2747671, 19774229.
-
(2009)
PLoS One
, vol.4
, Issue.8
-
-
Boks, M.P.1
-
10
-
-
60349092402
-
Mapping complex disease traits with global gene expression
-
10.1038/nrg2537, 19223927
-
Cookson W, et al. Mapping complex disease traits with global gene expression. Nat Rev Genet 2009, 10(3):184-194. 10.1038/nrg2537, 19223927.
-
(2009)
Nat Rev Genet
, vol.10
, Issue.3
, pp. 184-194
-
-
Cookson, W.1
-
11
-
-
33646205954
-
The genetics of regulatory variation in the human genome
-
3525257, 16004727
-
Stranger BE, Dermitzakis ET. The genetics of regulatory variation in the human genome. Hum Genomics 2005, 2(2):126-131. 3525257, 16004727.
-
(2005)
Hum Genomics
, vol.2
, Issue.2
, pp. 126-131
-
-
Stranger, B.E.1
Dermitzakis, E.T.2
-
12
-
-
33846978695
-
Relative impact of nucleotide and copy number variation on gene expression phenotypes
-
10.1126/science.1136678, 2665772, 17289997
-
Stranger BE, et al. Relative impact of nucleotide and copy number variation on gene expression phenotypes. Science 2007, 315(5813):848-853. 10.1126/science.1136678, 2665772, 17289997.
-
(2007)
Science
, vol.315
, Issue.5813
, pp. 848-853
-
-
Stranger, B.E.1
-
13
-
-
79952256739
-
The architecture of gene regulatory variation across multiple human tissues: the MuTHER study
-
10.1371/journal.pgen.1002003, 3033383, 21304890
-
Nica AC, et al. The architecture of gene regulatory variation across multiple human tissues: the MuTHER study. PLoS Genet 2011, 7(2):e1002003. 10.1371/journal.pgen.1002003, 3033383, 21304890.
-
(2011)
PLoS Genet
, vol.7
, Issue.2
-
-
Nica, A.C.1
-
14
-
-
34548738566
-
Population genomics of human gene expression
-
10.1038/ng2142, 2683249, 17873874
-
Stranger BE, et al. Population genomics of human gene expression. Nat Genet 2007, 39(10):1217-1224. 10.1038/ng2142, 2683249, 17873874.
-
(2007)
Nat Genet
, vol.39
, Issue.10
, pp. 1217-1224
-
-
Stranger, B.E.1
-
15
-
-
77957372037
-
Tissue specific DNA methylation of CpG islands in normal human adult somatic tissues distinguishes neural from non-neural tissues
-
Ghosh S, et al. Tissue specific DNA methylation of CpG islands in normal human adult somatic tissues distinguishes neural from non-neural tissues. Epigenetics: official journal of the DNA Methylation Society 2010, 5(6):527-538.
-
(2010)
Epigenetics: official journal of the DNA Methylation Society
, vol.5
, Issue.6
, pp. 527-538
-
-
Ghosh, S.1
-
16
-
-
79955777417
-
Genome-wide survey reveals dynamic widespread tissue-specific changes in DNA methylation during development
-
10.1186/1471-2164-12-231, 3118215, 21569359
-
Liang P, et al. Genome-wide survey reveals dynamic widespread tissue-specific changes in DNA methylation during development. BMC Genomics 2011, 12(1):231. 10.1186/1471-2164-12-231, 3118215, 21569359.
-
(2011)
BMC Genomics
, vol.12
, Issue.1
, pp. 231
-
-
Liang, P.1
-
17
-
-
66449134529
-
High resolution mapping of expression QTLs in heterogeneous stock mice in multiple tissues
-
10.1101/gr.088120.108, 2694476, 19376938
-
Huang GJ, et al. High resolution mapping of expression QTLs in heterogeneous stock mice in multiple tissues. Genome Res 2009, 19(6):1133-1140. 10.1101/gr.088120.108, 2694476, 19376938.
-
(2009)
Genome Res
, vol.19
, Issue.6
, pp. 1133-1140
-
-
Huang, G.J.1
-
18
-
-
33750481513
-
Heritability and tissue specificity of expression quantitative trait loci
-
10.1371/journal.pgen.0020172, 1617131, 17054398
-
Petretto E, et al. Heritability and tissue specificity of expression quantitative trait loci. PLoS Genet 2006, 2(10):e172. 10.1371/journal.pgen.0020172, 1617131, 17054398.
-
(2006)
PLoS Genet
, vol.2
, Issue.10
-
-
Petretto, E.1
-
19
-
-
44149084690
-
Using genetic markers to orient the edges in quantitative trait networks: the NEO software
-
10.1186/1752-0509-2-34, 2387136, 18412962
-
Aten JE, et al. Using genetic markers to orient the edges in quantitative trait networks: the NEO software. BMC Syst Biol 2008, 2:34. 10.1186/1752-0509-2-34, 2387136, 18412962.
-
(2008)
BMC Syst Biol
, vol.2
, pp. 34
-
-
Aten, J.E.1
-
20
-
-
40749105508
-
Variations in DNA elucidate molecular networks that cause disease
-
10.1038/nature06757, 2841398, 18344982
-
Chen Y, et al. Variations in DNA elucidate molecular networks that cause disease. Nature 2008, 452(7186):429-435. 10.1038/nature06757, 2841398, 18344982.
-
(2008)
Nature
, vol.452
, Issue.7186
, pp. 429-435
-
-
Chen, Y.1
-
21
-
-
78049420683
-
An immune response network associated with blood lipid levels
-
2936545, 20844574
-
Inouye M, et al. An immune response network associated with blood lipid levels. PLoS Genet 2010, 6((9):e1001113. 2936545, 20844574.
-
(2010)
PLoS Genet
, vol.6
, Issue.9
-
-
Inouye, M.1
-
22
-
-
70349656509
-
A systems genetics approach implicates USF1, FADS3, and other causal candidate genes for familial combined hyperlipidemia
-
10.1371/journal.pgen.1000642, 2730565, 19750004
-
Plaisier CL, et al. A systems genetics approach implicates USF1, FADS3, and other causal candidate genes for familial combined hyperlipidemia. PLoS Genet 2009, 5(9):e1000642. 10.1371/journal.pgen.1000642, 2730565, 19750004.
-
(2009)
PLoS Genet
, vol.5
, Issue.9
-
-
Plaisier, C.L.1
-
23
-
-
58549117328
-
Integrated weighted gene co-expression network analysis with an application to chronic fatigue syndrome
-
10.1186/1752-0509-2-95, 2625353, 18986552
-
Presson AP, et al. Integrated weighted gene co-expression network analysis with an application to chronic fatigue syndrome. BMC Syst Biol 2008, 2:95. 10.1186/1752-0509-2-95, 2625353, 18986552.
-
(2008)
BMC Syst Biol
, vol.2
, pp. 95
-
-
Presson, A.P.1
-
24
-
-
34548292504
-
PLINK: a tool set for whole-genome association and population-based linkage analyses
-
10.1086/519795, 1950838, 17701901
-
Purcell S, et al. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 2007, 81(3):559-575. 10.1086/519795, 1950838, 17701901.
-
(2007)
Am J Hum Genet
, vol.81
, Issue.3
, pp. 559-575
-
-
Purcell, S.1
-
25
-
-
57249114505
-
SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap
-
10.1093/bioinformatics/btn564, 2720775, 18974171
-
Johnson AD, et al. SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap. Bioinformatics 2008, 24(24):2938-2939. 10.1093/bioinformatics/btn564, 2720775, 18974171.
-
(2008)
Bioinformatics
, vol.24
, Issue.24
, pp. 2938-2939
-
-
Johnson, A.D.1
-
26
-
-
60549111634
-
WGCNA: an R package for weighted correlation network analysis
-
10.1186/1471-2105-9-559, 2631488, 19114008
-
Langfelder P, Horvath S. WGCNA: an R package for weighted correlation network analysis. BMC Bioinformatics 2008, 9:559. 10.1186/1471-2105-9-559, 2631488, 19114008.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 559
-
-
Langfelder, P.1
Horvath, S.2
-
27
-
-
23944458138
-
A general framework for weighted gene co-expression network analysis
-
Article17
-
Zhang B, Horvath S. A general framework for weighted gene co-expression network analysis. Stat Appl Genet Mol Biol 2005, 4:Article17.
-
(2005)
Stat Appl Genet Mol Biol
, vol.4
-
-
Zhang, B.1
Horvath, S.2
-
28
-
-
79551545346
-
Is my network module preserved and reproducible?
-
10.1371/journal.pcbi.1001057, 3024255, 21283776
-
Langfelder P, et al. Is my network module preserved and reproducible?. PLoS Comput Biol 2011, 7(1):e1001057. 10.1371/journal.pcbi.1001057, 3024255, 21283776.
-
(2011)
PLoS Comput Biol
, vol.7
, Issue.1
-
-
Langfelder, P.1
-
29
-
-
33745208970
-
How replicable are mRNA expression QTL?
-
10.1007/s00335-005-0187-8, 16783644
-
Peirce JL, et al. How replicable are mRNA expression QTL?. Mamm Genome 2006, 17(6):643-656. 10.1007/s00335-005-0187-8, 16783644.
-
(2006)
Mamm Genome
, vol.17
, Issue.6
, pp. 643-656
-
-
Peirce, J.L.1
-
30
-
-
77957915239
-
Expression quantitative trait loci: replication, tissue- and sex-specificity in mice
-
10.1534/genetics.110.116087, 2907192, 20439777
-
van Nas A, et al. Expression quantitative trait loci: replication, tissue- and sex-specificity in mice. Genetics 2010, 185(3):1059-1068. 10.1534/genetics.110.116087, 2907192, 20439777.
-
(2010)
Genetics
, vol.185
, Issue.3
, pp. 1059-1068
-
-
van Nas, A.1
-
31
-
-
77954504873
-
Conserved role of intragenic DNA methylation in regulating alternative promoters
-
10.1038/nature09165, 20613842
-
Maunakea AK, et al. Conserved role of intragenic DNA methylation in regulating alternative promoters. Nature 2010, 466(7303):253-257. 10.1038/nature09165, 20613842.
-
(2010)
Nature
, vol.466
, Issue.7303
, pp. 253-257
-
-
Maunakea, A.K.1
-
33
-
-
53549130989
-
Genomic predictors of interindividual differences in response to DNA damaging agents
-
10.1101/gad.1688508, 2559901, 18805990
-
Fry RC, et al. Genomic predictors of interindividual differences in response to DNA damaging agents. Genes Dev 2008, 22(19):2621-2626. 10.1101/gad.1688508, 2559901, 18805990.
-
(2008)
Genes Dev
, vol.22
, Issue.19
, pp. 2621-2626
-
-
Fry, R.C.1
-
34
-
-
77954362183
-
Examination of the specificity of DNA methylation profiling techniques towards 5-methylcytosine and 5-hydroxymethylcytosine
-
10.1093/nar/gkq223, 2887978, 20371518
-
Jin SG, Kadam S, Pfeifer GP. Examination of the specificity of DNA methylation profiling techniques towards 5-methylcytosine and 5-hydroxymethylcytosine. Nucleic Acids Res 2010, 38(11):e125. 10.1093/nar/gkq223, 2887978, 20371518.
-
(2010)
Nucleic Acids Res
, vol.38
, Issue.11
-
-
Jin, S.G.1
Kadam, S.2
Pfeifer, G.P.3
-
36
-
-
80051712275
-
Emerging roles of TET proteins and 5-hydroxymethylcytosines in active DNA demethylation and beyond
-
10.4161/cc.10.16.17093, 3219536, 21811096
-
Guo JU, et al. Emerging roles of TET proteins and 5-hydroxymethylcytosines in active DNA demethylation and beyond. Cell Cycle 2011, 10(16):2662-2668. 10.4161/cc.10.16.17093, 3219536, 21811096.
-
(2011)
Cell Cycle
, vol.10
, Issue.16
, pp. 2662-2668
-
-
Guo, J.U.1
-
37
-
-
84860749868
-
Tet family proteins and 5-hydroxymethylcytosine in development and disease
-
10.1242/dev.070771, 22569552
-
Tan L, Shi YG. Tet family proteins and 5-hydroxymethylcytosine in development and disease. Development 2012, 139(11):1895-1902. 10.1242/dev.070771, 22569552.
-
(2012)
Development
, vol.139
, Issue.11
, pp. 1895-1902
-
-
Tan, L.1
Shi, Y.G.2
-
38
-
-
83855163995
-
Uncovering the role of 5-hydroxymethylcytosine in the epigenome
-
Branco MR, Ficz G, Reik W. Uncovering the role of 5-hydroxymethylcytosine in the epigenome. Nat Rev Genet 2012, 13(1):7-13.
-
(2012)
Nat Rev Genet
, vol.13
, Issue.1
, pp. 7-13
-
-
Branco, M.R.1
Ficz, G.2
Reik, W.3
-
39
-
-
78649783848
-
Gene expression in skin and lymphoblastoid cells: Refined statistical method reveals extensive overlap in cis-eQTL signals
-
10.1016/j.ajhg.2010.10.024, 2997368, 21129726
-
Ding J, et al. Gene expression in skin and lymphoblastoid cells: Refined statistical method reveals extensive overlap in cis-eQTL signals. Am J Hum Genet 2010, 87(6):779-789. 10.1016/j.ajhg.2010.10.024, 2997368, 21129726.
-
(2010)
Am J Hum Genet
, vol.87
, Issue.6
, pp. 779-789
-
-
Ding, J.1
-
40
-
-
62649155943
-
A unified approach to genotype imputation and haplotype-phase inference for large data sets of trios and unrelated individuals
-
10.1016/j.ajhg.2009.01.005, 2668004, 19200528
-
Browning BL, Browning SR. A unified approach to genotype imputation and haplotype-phase inference for large data sets of trios and unrelated individuals. Am J Hum Genet 2009, 84(2):210-223. 10.1016/j.ajhg.2009.01.005, 2668004, 19200528.
-
(2009)
Am J Hum Genet
, vol.84
, Issue.2
, pp. 210-223
-
-
Browning, B.L.1
Browning, S.R.2
-
41
-
-
0347755531
-
The UCSC Table Browser data retrieval tool
-
308837, 14681465, Database issue
-
Karolchik D, et al. The UCSC Table Browser data retrieval tool. Nucleic Acids Res 2004, 32(Database issue):D493-D496. 308837, 14681465.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Karolchik, D.1
-
42
-
-
84861970118
-
Sample Networks for Enhancing Cluster Analysis of Genomic Data: Application to Huntington's Disease
-
Oldham MC, Langfelder P, Horvath S. Sample Networks for Enhancing Cluster Analysis of Genomic Data: Application to Huntington's Disease. BMC Syst Biol 2011, 6:63.
-
(2011)
BMC Syst Biol
, vol.6
, pp. 63
-
-
Oldham, M.C.1
Langfelder, P.2
Horvath, S.3
-
43
-
-
33845432928
-
Adjusting batch effects in microarray expression data using empirical Bayes methods
-
10.1093/biostatistics/kxj037, 16632515
-
Johnson WE, Li C, Rabinovic A. Adjusting batch effects in microarray expression data using empirical Bayes methods. Biostatistics 2007, 8(1):118-127. 10.1093/biostatistics/kxj037, 16632515.
-
(2007)
Biostatistics
, vol.8
, Issue.1
, pp. 118-127
-
-
Johnson, W.E.1
Li, C.2
Rabinovic, A.3
-
44
-
-
46249088370
-
Lumi: a pipeline for processing Illumina microarray
-
10.1093/bioinformatics/btn224, 18467348
-
Du P, Kibbe WA, Lin SM. lumi: a pipeline for processing Illumina microarray. Bioinformatics 2008, 24(13):1547-1548. 10.1093/bioinformatics/btn224, 18467348.
-
(2008)
Bioinformatics
, vol.24
, Issue.13
, pp. 1547-1548
-
-
Du, P.1
Kibbe, W.A.2
Lin, S.M.3
-
45
-
-
80052322958
-
Trans-eQTLs reveal that independent genetic variants associated with a complex phenotype converge on intermediate genes, with a major role for the HLA
-
10.1371/journal.pgen.1002197, 3150446, 21829388
-
Fehrmann RS, et al. Trans-eQTLs reveal that independent genetic variants associated with a complex phenotype converge on intermediate genes, with a major role for the HLA. PLoS Genet 2011, 7(8):e1002197. 10.1371/journal.pgen.1002197, 3150446, 21829388.
-
(2011)
PLoS Genet
, vol.7
, Issue.8
-
-
Fehrmann, R.S.1
-
47
-
-
4544341015
-
Linear models and empirical bayes methods for assessing differential expression in microarray experiments
-
Article3
-
Smyth GK. Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 2004, 3:Article3.
-
(2004)
Stat Appl Genet Mol Biol
, vol.3
-
-
Smyth, G.K.1
|