-
1
-
-
67249117049
-
Potential etiologic and functional implications of genome-wide association loci for human diseases and traits
-
Hindorff, L. A. et al. Potential etiologic and functional implications of genome-wide association loci for human diseases and traits. Proc. Natl Acad. Sci. USA 106, 9362-9367 (2009).
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 9362-9367
-
-
Hindorff, L.A.1
-
2
-
-
84868198825
-
Breast cancer risk-associated snps modulate the affinity of chromatin for foxa1 and alter gene expression
-
Cowper-Sal-lari, R. et al. Breast cancer risk-associated SNPs modulate the affinity of chromatin for FOXA1 and alter gene expression. Nature Genet. 44, 1191-1198 (2012).
-
(2012)
Nature Genet.
, vol.44
, pp. 1191-1198
-
-
Cowper-Sal-Lari, R.1
-
3
-
-
84857111200
-
DNase i sensitivity qtls are a major determinant of human expression variation
-
Degner, J. F. et al. DNase I sensitivity QTLs are a major determinant of human expression variation. Nature 482, 390-394 (2012).
-
(2012)
Nature
, vol.482
, pp. 390-394
-
-
Degner, J.F.1
-
4
-
-
84856321864
-
Dissecting the regulatory architecture of gene expression QTLs
-
Gaffney, D. J. et al. Dissecting the regulatory architecture of gene expression QTLs. Genome Biol. 13, R7 (2012).
-
(2012)
Genome Biol.
, vol.13
-
-
Gaffney, D.J.1
-
5
-
-
77649086970
-
A map of open chromatin in human pancreatic islets
-
Gaulton, K. J. et al. A map of open chromatin in human pancreatic islets. Nature Genet. 42, 255-259 (2010).
-
(2010)
Nature Genet.
, vol.42
, pp. 255-259
-
-
Gaulton, K.J.1
-
6
-
-
77952567987
-
Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities
-
Heinz, S. et al. Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. Mol. Cell 38, 576-589 (2010).
-
(2010)
Mol. Cell
, vol.38
, pp. 576-589
-
-
Heinz, S.1
-
7
-
-
77950833803
-
Variation in transcription factor binding among humans
-
Kasowski, M. et al. Variation in transcription factor binding among humans. Science 328, 232-235 (2010).
-
(2010)
Science
, vol.328
, pp. 232-235
-
-
Kasowski, M.1
-
8
-
-
84859224243
-
Widespread site-dependent buffering of human regulatory polymorphism
-
Maurano, M. T., Wang, H., Kutyavin, T. &Stamatoyannopoulos, J. A. Widespread site-dependent buffering of human regulatory polymorphism. PLoS Genet. 8, e1002599 (2012).
-
(2012)
PLoS Genet.
, vol.8
-
-
Maurano, M.T.1
Wang, H.2
Kutyavin, T.3
Stamatoyannopoulos, J.A.4
-
9
-
-
77950854479
-
Heritable individual-specific and allele-specific chromatin signatures in humans
-
McDaniell, R. et al. Heritable individual-specific and allele-specific chromatin signatures in humans. Science 328, 235-239 (2010).
-
(2010)
Science
, vol.328
, pp. 235-239
-
-
McDaniell, R.1
-
10
-
-
84859916280
-
Effects of sequence variation on differential allelic transcription factor occupancy and gene expression
-
Reddy, T. E. et al. Effects of sequence variation on differential allelic transcription factor occupancy and gene expression. Genome Res. 22, 860-869 (2012).
-
(2012)
Genome Res.
, vol.22
, pp. 860-869
-
-
Reddy, T.E.1
-
11
-
-
84865777825
-
Linking disease associations with regulatory information in the human genome
-
Schaub, M. A., Boyle, A. P., Kundaje, A., Batzoglou, S. &Snyder, M. Linking disease associations with regulatory information in the human genome. Genome Res. 22, 1748-1759 (2012).
-
(2012)
Genome Res.
, vol.22
, pp. 1748-1759
-
-
Schaub, M.A.1
Boyle, A.P.2
Kundaje, A.3
Batzoglou, S.4
Snyder, M.5
-
12
-
-
84866303839
-
A high-throughput chromatin immunoprecipitation approach reveals principles of dynamic gene regulation inmammals
-
Garber, M. et al. A high-throughput chromatin immunoprecipitation approach reveals principles of dynamic gene regulation inmammals. Mol. Cell 47, 810-822 (2012).
-
(2012)
Mol. Cell
, vol.47
, pp. 810-822
-
-
Garber, M.1
-
13
-
-
80155137594
-
Master transcription factors determine cell-type-specific responses to tgf-b signaling
-
Mullen, A. C. et al. Master transcription factors determine cell-type-specific responses to TGF-b signaling. Cell 147, 565-576 (2011).
-
(2011)
Cell
, vol.147
, pp. 565-576
-
-
Mullen, A.C.1
-
14
-
-
84870058502
-
Facilitators and impediments of the pluripotency reprogramming factors' initial engagement with the genome
-
Soufi, A., Donahue, G. &Zaret, K. S. Facilitators and impediments of the pluripotency reprogramming factors' initial engagement with the genome. Cell 151, 994-1004 (2012).
-
(2012)
Cell
, vol.151
, pp. 994-1004
-
-
Soufi, A.1
Donahue, G.2
Zaret, K.S.3
-
15
-
-
80155123782
-
Lineage regulators direct BMP and Wnt pathways to cellspecific programs during differentiation and regeneration
-
Trompouki, E. et al. Lineage regulators direct BMP and Wnt pathways to cellspecific programs during differentiation and regeneration. Cell 147, 577-589 (2011).
-
(2011)
Cell
, vol.147
, pp. 577-589
-
-
Trompouki, E.1
-
16
-
-
77949977555
-
Identification and characterization of enhancers controlling the inflammatory gene expression program in macrophages
-
Ghisletti, S. et al. Identification and characterization of enhancers controlling the inflammatory gene expression program in macrophages. Immunity 32, 317-328 (2010).
-
(2010)
Immunity
, vol.32
, pp. 317-328
-
-
Ghisletti, S.1
-
17
-
-
80052851950
-
Mouse genomic variation and its effect on phenotypes and gene regulation
-
Keane, T. M. et al. Mouse genomic variation and its effect on phenotypes and gene regulation. Nature 477, 289-294 (2011).
-
(2011)
Nature
, vol.477
, pp. 289-294
-
-
Keane, T.M.1
-
18
-
-
78651107675
-
Nucleosome-mediated cooperativity between transcription factors
-
Mirny, L. A. Nucleosome-mediated cooperativity between transcription factors. Proc. Natl Acad. Sci. USA 107, 22534-22539 (2010).
-
(2010)
Proc. Natl Acad. Sci. USA
, vol.107
, pp. 22534-22539
-
-
Mirny, L.A.1
-
19
-
-
77950262538
-
Nucleosome dynamics define transcriptional enhancers
-
He, H. H. et al. Nucleosome dynamics define transcriptional enhancers. Nature Genet. 42, 343-347 (2010).
-
(2010)
Nature Genet.
, vol.42
, pp. 343-347
-
-
He, H.H.1
-
20
-
-
78650758676
-
Histone H3K27ac separates active from poised enhancers and predicts developmental state
-
Creyghton, M. P. et al. Histone H3K27ac separates active from poised enhancers and predicts developmental state. Proc. Natl Acad. Sci. USA 107, 21931-21936 (2010).
-
(2010)
Proc. Natl Acad. Sci. USA
, vol.107
, pp. 21931-21936
-
-
Creyghton, M.P.1
-
21
-
-
84881526410
-
Remodeling of the enhancer landscape during macrophage activation is coupled to enhancer transcription
-
Kaikkonen, M. U. et al. Remodeling of the enhancer landscape during macrophage activation is coupled to enhancer transcription. Mol. Cell 51, 310-325 (2013).
-
(2013)
Mol. Cell
, vol.51
, pp. 310-325
-
-
Kaikkonen, M.U.1
-
22
-
-
33750204290
-
Genetics of global gene expression
-
Rockman, M. V. &Kruglyak, L. Genetics of global gene expression. Nature Rev. Genet. 7, 862-872 (2006).
-
(2006)
Nature Rev. Genet.
, vol.7
, pp. 862-872
-
-
Rockman, M.V.1
Kruglyak, L.2
-
23
-
-
84868036620
-
Unraveling inflammatory responses using systemsgenetics and gene-environment interactions in macrophages
-
Orozco, L. D. et al. Unraveling inflammatory responses using systemsgenetics and gene-environment interactions in macrophages. Cell 151, 658-670 (2012).
-
(2012)
Cell
, vol.151
, pp. 658-670
-
-
Orozco, L.D.1
-
24
-
-
80053539409
-
Open chromatin defined by dnasei and faire identifies regulatory elements that shape cell-type identity
-
Song, L. et al. Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity. Genome Res. 21, 1757-1767 (2011).
-
(2011)
Genome Res.
, vol.21
, pp. 1757-1767
-
-
Song, L.1
-
25
-
-
75649122259
-
A high-resolution association mapping panel for the dissection of complex traits in mice
-
Bennett, B. J. et al. A high-resolution association mapping panel for the dissection of complex traits in mice. Genome Res. 20, 281-290 (2010).
-
(2010)
Genome Res.
, vol.20
, pp. 281-290
-
-
Bennett, B.J.1
-
26
-
-
33646804835
-
Kdo2-Lipid A of Escherichia coli, a defined endotoxin that activates macrophages via TLR-4
-
Raetz, C. R. et al. Kdo2-Lipid A of Escherichia coli, a defined endotoxin that activates macrophages via TLR-4. J. Lipid Res. 47, 1097-1111 (2006).
-
(2006)
J. Lipid Res.
, vol.47
, pp. 1097-1111
-
-
Raetz, C.R.1
-
27
-
-
84857052421
-
Transcriptional regulation in the innate immune system
-
Smale, S. T. Transcriptional regulation in the innate immune system. Curr. Opin. Immunol. 24, 51-57 (2012).
-
(2012)
Curr. Opin. Immunol.
, vol.24
, pp. 51-57
-
-
Smale, S.T.1
-
28
-
-
79960860669
-
Extensive characterization of NF-kB binding uncovers noncanonical motifs and advances the interpretation of genetic functional traits
-
Wong, D. et al. Extensive characterization of NF-kB binding uncovers noncanonical motifs and advances the interpretation of genetic functional traits. Genome Biol. 12, R70 (2011).
-
(2011)
Genome Biol.
, vol.12
-
-
Wong, D.1
-
29
-
-
84880547544
-
Mechanisms of in vivo binding site selection of the hematopoietic master transcription factor PU
-
Pham, T. H. et al. Mechanisms of in vivo binding site selection of the hematopoietic master transcription factor PU. 1. Nucleic Acids Res. 41, 6391-6402 (2013).
-
(2013)
1. Nucleic Acids Res.
, vol.41
, pp. 6391-6402
-
-
Pham, T.H.1
-
30
-
-
84872540994
-
DNA-binding specificities of human transcription factors
-
Jolma, A. et al. DNA-binding specificities of human transcription factors. Cell 152, 327-339 (2013).
-
(2013)
Cell
, vol.152
, pp. 327-339
-
-
Jolma, A.1
-
31
-
-
34249026300
-
High-resolution profiling of histone methylations in the human genome
-
Barski, A. et al. High-resolution profiling of histone methylations in the human genome. Cell 129, 823-837 (2007).
-
(2007)
Cell
, vol.129
, pp. 823-837
-
-
Barski, A.1
-
32
-
-
79959198166
-
Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA
-
Wang, D. et al. Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA. Nature 474, 390-394 (2011).
-
(2011)
Nature
, vol.474
, pp. 390-394
-
-
Wang, D.1
-
33
-
-
62349130698
-
Ultrafast and memoryefficient alignment of short DNAsequences to the humangenome
-
Langmead, B., Trapnell, C., Pop, M. &Salzberg, S. L. Ultrafast and memoryefficient alignment of short DNAsequences to the humangenome. Genome Biol. 10, R25 (2009).
-
(2009)
Genome Biol.
, vol.10
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
34
-
-
84859210032
-
Fast gapped-read alignment with Bowtie
-
Langmead, B. &Salzberg, S. L. Fast gapped-read alignment with Bowtie. Nature Methods 9, 357-359 (2012).
-
(2012)
Nature Methods
, vol.9
, pp. 357-359
-
-
Langmead, B.1
Salzberg, S.L.2
-
35
-
-
0001677717
-
Controlling the false discovery rate: A practical and powerful approach to multiple testing
-
Hochberg, Y. B. Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. Ser. A Stat. Soc. 57, 289-300 (1995).
-
(1995)
J. R. Stat. Soc. Ser. A Stat. Soc.
, vol.57
, pp. 289-300
-
-
Hochberg, B.Y.Y.1
-
36
-
-
34548295740
-
A sequence-based variation mapof 8 27 million SNPs in inbred mouse strains
-
Frazer, K. A. et al. A sequence-based variation mapof 8. 27 million SNPs in inbred mouse strains. Nature 448, 1050-1053 (2007).
-
(2007)
Nature
, vol.448
, pp. 1050-1053
-
-
Frazer, K.A.1
-
37
-
-
78349254248
-
Fine mapping in 94 inbred mouse strains using a high-density haplotype resource
-
Kirby, A. et al. Fine mapping in 94 inbred mouse strains using a high-density haplotype resource. Genetics 185, 1081-1095 (2010).
-
(2010)
Genetics
, vol.185
, pp. 1081-1095
-
-
Kirby, A.1
-
38
-
-
45149105926
-
Efficient control of population structure in model organism association mapping
-
Kang, H. M. et al. Efficient control of population structure in model organism association mapping. Genetics 178, 1709-1723 (2008).
-
(2008)
Genetics
, vol.178
, pp. 1709-1723
-
-
Kang, H.M.1
-
39
-
-
13444269543
-
Haploview: Analysis and visualization of LD and haplotype maps
-
Barrett, J. C., Fry, B.,Maller, J. &Daly, M. J. Haploview: analysis and visualization of LD and haplotype maps. Bioinformatics 21, 263-265 (2005).
-
(2005)
Bioinformatics
, vol.21
, pp. 263-265
-
-
Barrett, J.C.1
Fry, B.2
Maller, J.3
Daly, M.J.4
|