-
1
-
-
33644853775
-
Targeting of GFP to newborn rods by Nrl promoter and temporal expression profiling of flow-sorted photoreceptors
-
Akimoto, M., Cheng, H., Zhu, D., Brzezinski, J.A., Khanna, R., Filippova, E., Oh, E.C., Jing, Y., Linares, J.L., Brooks, M., et al. Targeting of GFP to newborn rods by Nrl promoter and temporal expression profiling of flow-sorted photoreceptors. Proc. Natl. Acad. Sci. USA 103 (2006), 3890–3895.
-
(2006)
Proc. Natl. Acad. Sci. USA
, vol.103
, pp. 3890-3895
-
-
Akimoto, M.1
Cheng, H.2
Zhu, D.3
Brzezinski, J.A.4
Khanna, R.5
Filippova, E.6
Oh, E.C.7
Jing, Y.8
Linares, J.L.9
Brooks, M.10
-
2
-
-
84886859638
-
Chromatin dynamics during cellular reprogramming
-
Apostolou, E., Hochedlinger, K., Chromatin dynamics during cellular reprogramming. Nature 502 (2013), 462–471.
-
(2013)
Nature
, vol.502
, pp. 462-471
-
-
Apostolou, E.1
Hochedlinger, K.2
-
3
-
-
0031877016
-
Combining evidence using p-values: application to sequence homology searches
-
Bailey, T.L., Gribskov, M., Combining evidence using p-values: application to sequence homology searches. Bioinformatics 14 (1998), 48–54.
-
(1998)
Bioinformatics
, vol.14
, pp. 48-54
-
-
Bailey, T.L.1
Gribskov, M.2
-
4
-
-
67849122320
-
MEME SUITE: tools for motif discovery and searching
-
Bailey, T.L., Boden, M., Buske, F.A., Frith, M., Grant, C.E., Clementi, L., Ren, J., Li, W.W., Noble, W.S., MEME SUITE: tools for motif discovery and searching. Nucleic Acids Res. 37 (2009), W202–W208.
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. W202-W208
-
-
Bailey, T.L.1
Boden, M.2
Buske, F.A.3
Frith, M.4
Grant, C.E.5
Clementi, L.6
Ren, J.7
Li, W.W.8
Noble, W.S.9
-
5
-
-
84891710987
-
The DNA methyltransferase Dnmt1 directly interacts with the SET and RING finger-associated (SRA) domain of the multifunctional protein Uhrf1 to facilitate accession of the catalytic center to hemi-methylated DNA
-
Berkyurek, A.C., Suetake, I., Arita, K., Takeshita, K., Nakagawa, A., Shirakawa, M., Tajima, S., The DNA methyltransferase Dnmt1 directly interacts with the SET and RING finger-associated (SRA) domain of the multifunctional protein Uhrf1 to facilitate accession of the catalytic center to hemi-methylated DNA. J. Biol. Chem. 289 (2014), 379–386.
-
(2014)
J. Biol. Chem.
, vol.289
, pp. 379-386
-
-
Berkyurek, A.C.1
Suetake, I.2
Arita, K.3
Takeshita, K.4
Nakagawa, A.5
Shirakawa, M.6
Tajima, S.7
-
6
-
-
0035977135
-
Comprehensive analysis of photoreceptor gene expression and the identification of candidate retinal disease genes
-
Blackshaw, S., Fraioli, R.E., Furukawa, T., Cepko, C.L., Comprehensive analysis of photoreceptor gene expression and the identification of candidate retinal disease genes. Cell 107 (2001), 579–589.
-
(2001)
Cell
, vol.107
, pp. 579-589
-
-
Blackshaw, S.1
Fraioli, R.E.2
Furukawa, T.3
Cepko, C.L.4
-
7
-
-
18544392723
-
MicroSAGE is highly representative and reproducible but reveals major differences in gene expression among samples obtained from similar tissues
-
Blackshaw, S., Kuo, W.P., Park, P.J., Tsujikawa, M., Gunnersen, J.M., Scott, H.S., Boon, W.M., Tan, S.S., Cepko, C.L., MicroSAGE is highly representative and reproducible but reveals major differences in gene expression among samples obtained from similar tissues. Genome Biol., 4, 2003, R17.
-
(2003)
Genome Biol.
, vol.4
, pp. R17
-
-
Blackshaw, S.1
Kuo, W.P.2
Park, P.J.3
Tsujikawa, M.4
Gunnersen, J.M.5
Scott, H.S.6
Boon, W.M.7
Tan, S.S.8
Cepko, C.L.9
-
8
-
-
19344368188
-
Genomic analysis of mouse retinal development
-
Blackshaw, S., Harpavat, S., Trimarchi, J., Cai, L., Huang, H., Kuo, W.P., Weber, G., Lee, K., Fraioli, R.E., Cho, S.H., et al. Genomic analysis of mouse retinal development. PLoS Biol., 2, 2004, E247.
-
(2004)
PLoS Biol.
, vol.2
, pp. E247
-
-
Blackshaw, S.1
Harpavat, S.2
Trimarchi, J.3
Cai, L.4
Huang, H.5
Kuo, W.P.6
Weber, G.7
Lee, K.8
Fraioli, R.E.9
Cho, S.H.10
-
9
-
-
79960874109
-
Ascl1 expression defines a subpopulation of lineage-restricted progenitors in the mammalian retina
-
Brzezinski, J.A. 4th, Kim, E.J., Johnson, J.E., Reh, T.A., Ascl1 expression defines a subpopulation of lineage-restricted progenitors in the mammalian retina. Development 138 (2011), 3519–3531.
-
(2011)
Development
, vol.138
, pp. 3519-3531
-
-
Brzezinski, J.A.1
Kim, E.J.2
Johnson, J.E.3
Reh, T.A.4
-
10
-
-
84888877924
-
Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
-
Buenrostro, J.D., Giresi, P.G., Zaba, L.C., Chang, H.Y., Greenleaf, W.J., Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position. Nat. Methods 10 (2013), 1213–1218.
-
(2013)
Nat. Methods
, vol.10
, pp. 1213-1218
-
-
Buenrostro, J.D.1
Giresi, P.G.2
Zaba, L.C.3
Chang, H.Y.4
Greenleaf, W.J.5
-
11
-
-
13344249785
-
Ocular retardation mouse caused by Chx10 homeobox null allele: impaired retinal progenitor proliferation and bipolar cell differentiation
-
Burmeister, M., Novak, J., Liang, M.Y., Basu, S., Ploder, L., Hawes, N.L., Vidgen, D., Hoover, F., Goldman, D., Kalnins, V.I., et al. Ocular retardation mouse caused by Chx10 homeobox null allele: impaired retinal progenitor proliferation and bipolar cell differentiation. Nat. Genet. 12 (1996), 376–384.
-
(1996)
Nat. Genet.
, vol.12
, pp. 376-384
-
-
Burmeister, M.1
Novak, J.2
Liang, M.Y.3
Basu, S.4
Ploder, L.5
Hawes, N.L.6
Vidgen, D.7
Hoover, F.8
Goldman, D.9
Kalnins, V.I.10
-
12
-
-
84906314841
-
Intrinsically different retinal progenitor cells produce specific types of progeny
-
Cepko, C., Intrinsically different retinal progenitor cells produce specific types of progeny. Nat. Rev. Neurosci. 15 (2014), 615–627.
-
(2014)
Nat. Rev. Neurosci.
, vol.15
, pp. 615-627
-
-
Cepko, C.1
-
13
-
-
84943658543
-
Pediatric solid tumor genomics and developmental pliancy
-
Chen, X., Pappo, A., Dyer, M.A., Pediatric solid tumor genomics and developmental pliancy. Oncogene 34 (2015), 5207–5215.
-
(2015)
Oncogene
, vol.34
, pp. 5207-5215
-
-
Chen, X.1
Pappo, A.2
Dyer, M.A.3
-
14
-
-
67249089012
-
Development and diversification of retinal amacrine interneurons at single cell resolution
-
Cherry, T.J., Trimarchi, J.M., Stadler, M.B., Cepko, C.L., Development and diversification of retinal amacrine interneurons at single cell resolution. Proc. Natl. Acad. Sci. USA 106 (2009), 9495–9500.
-
(2009)
Proc. Natl. Acad. Sci. USA
, vol.106
, pp. 9495-9500
-
-
Cherry, T.J.1
Trimarchi, J.M.2
Stadler, M.B.3
Cepko, C.L.4
-
15
-
-
84878251843
-
Neuroblastoma: developmental biology, cancer genomics and immunotherapy
-
Cheung, N.K., Dyer, M.A., Neuroblastoma: developmental biology, cancer genomics and immunotherapy. Nat. Rev. Cancer 13 (2013), 397–411.
-
(2013)
Nat. Rev. Cancer
, vol.13
, pp. 397-411
-
-
Cheung, N.K.1
Dyer, M.A.2
-
16
-
-
84925636391
-
Chromatin-driven behavior of topologically associating domains
-
Ciabrelli, F., Cavalli, G., Chromatin-driven behavior of topologically associating domains. J. Mol. Biol. 427 (2015), 608–625.
-
(2015)
J. Mol. Biol.
, vol.427
, pp. 608-625
-
-
Ciabrelli, F.1
Cavalli, G.2
-
17
-
-
77956394013
-
CRX ChIP-seq reveals the cis-regulatory architecture of mouse photoreceptors
-
Corbo, J.C., Lawrence, K.A., Karlstetter, M., Myers, C.A., Abdelaziz, M., Dirkes, W., Weigelt, K., Seifert, M., Benes, V., Fritsche, L.G., et al. CRX ChIP-seq reveals the cis-regulatory architecture of mouse photoreceptors. Genome Res. 20 (2010), 1512–1525.
-
(2010)
Genome Res.
, vol.20
, pp. 1512-1525
-
-
Corbo, J.C.1
Lawrence, K.A.2
Karlstetter, M.3
Myers, C.A.4
Abdelaziz, M.5
Dirkes, W.6
Weigelt, K.7
Seifert, M.8
Benes, V.9
Fritsche, L.G.10
-
18
-
-
50149097983
-
Hypoxia, HIF1 and glucose metabolism in the solid tumour
-
Denko, N.C., Hypoxia, HIF1 and glucose metabolism in the solid tumour. Nat. Rev. Cancer 8 (2008), 705–713.
-
(2008)
Nat. Rev. Cancer
, vol.8
, pp. 705-713
-
-
Denko, N.C.1
-
19
-
-
84861095603
-
Topological domains in mammalian genomes identified by analysis of chromatin interactions
-
Dixon, J.R., Selvaraj, S., Yue, F., Kim, A., Li, Y., Shen, Y., Hu, M., Liu, J.S., Ren, B., Topological domains in mammalian genomes identified by analysis of chromatin interactions. Nature 485 (2012), 376–380.
-
(2012)
Nature
, vol.485
, pp. 376-380
-
-
Dixon, J.R.1
Selvaraj, S.2
Yue, F.3
Kim, A.4
Li, Y.5
Shen, Y.6
Hu, M.7
Liu, J.S.8
Ren, B.9
-
20
-
-
84861633881
-
The Pediatric Cancer Genome Project
-
Downing, J.R., Wilson, R.K., Zhang, J., Mardis, E.R., Pui, C.H., Ding, L., Ley, T.J., Evans, W.E., The Pediatric Cancer Genome Project. Nat. Genet. 44 (2012), 619–622.
-
(2012)
Nat. Genet.
, vol.44
, pp. 619-622
-
-
Downing, J.R.1
Wilson, R.K.2
Zhang, J.3
Mardis, E.R.4
Pui, C.H.5
Ding, L.6
Ley, T.J.7
Evans, W.E.8
-
21
-
-
84994355358
-
Lessons from retinoblastoma: implications for cancer, development, evolution, and regenerative medicine
-
Dyer, M.A., Lessons from retinoblastoma: implications for cancer, development, evolution, and regenerative medicine. Trends Mol. Med. 22 (2016), 863–876.
-
(2016)
Trends Mol. Med.
, vol.22
, pp. 863-876
-
-
Dyer, M.A.1
-
22
-
-
84962815659
-
Stem cells expand insights into human brain evolution
-
Dyer, M.A., Stem cells expand insights into human brain evolution. Cell Stem Cell 18 (2016), 425–426.
-
(2016)
Cell Stem Cell
, vol.18
, pp. 425-426
-
-
Dyer, M.A.1
-
23
-
-
67049117711
-
Developmental sources of conservation and variation in the evolution of the primate eye
-
Dyer, M.A., Martins, R., da Silva Filho, M., Muniz, J.A., Silveira, L.C., Cepko, C.L., Finlay, B.L., Developmental sources of conservation and variation in the evolution of the primate eye. Proc. Natl. Acad. Sci. USA 106 (2009), 8963–8968.
-
(2009)
Proc. Natl. Acad. Sci. USA
, vol.106
, pp. 8963-8968
-
-
Dyer, M.A.1
Martins, R.2
da Silva Filho, M.3
Muniz, J.A.4
Silveira, L.C.5
Cepko, C.L.6
Finlay, B.L.7
-
24
-
-
84857707318
-
ChromHMM: automating chromatin-state discovery and characterization
-
Ernst, J., Kellis, M., ChromHMM: automating chromatin-state discovery and characterization. Nat. Methods 9 (2012), 215–216.
-
(2012)
Nat. Methods
, vol.9
, pp. 215-216
-
-
Ernst, J.1
Kellis, M.2
-
25
-
-
0030725687
-
Crx, a novel otx-like homeobox gene, shows photoreceptor-specific expression and regulates photoreceptor differentiation
-
Furukawa, T., Morrow, E.M., Cepko, C.L., Crx, a novel otx-like homeobox gene, shows photoreceptor-specific expression and regulates photoreceptor differentiation. Cell 91 (1997), 531–541.
-
(1997)
Cell
, vol.91
, pp. 531-541
-
-
Furukawa, T.1
Morrow, E.M.2
Cepko, C.L.3
-
26
-
-
84865760395
-
GENCODE: the reference human genome annotation for The ENCODE Project
-
Harrow, J., Frankish, A., Gonzalez, J.M., Tapanari, E., Diekhans, M., Kokocinski, F., Aken, B.L., Barrell, D., Zadissa, A., Searle, S., et al. GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res. 22 (2012), 1760–1774.
-
(2012)
Genome Res.
, vol.22
, pp. 1760-1774
-
-
Harrow, J.1
Frankish, A.2
Gonzalez, J.M.3
Tapanari, E.4
Diekhans, M.5
Kokocinski, F.6
Aken, B.L.7
Barrell, D.8
Zadissa, A.9
Searle, S.10
-
27
-
-
65549104157
-
Histone modifications at human enhancers reflect global cell-type-specific gene expression
-
Heintzman, N.D., Hon, G.C., Hawkins, R.D., Kheradpour, P., Stark, A., Harp, L.F., Ye, Z., Lee, L.K., Stuart, R.K., Ching, C.W., et al. Histone modifications at human enhancers reflect global cell-type-specific gene expression. Nature 459 (2009), 108–112.
-
(2009)
Nature
, vol.459
, pp. 108-112
-
-
Heintzman, N.D.1
Hon, G.C.2
Hawkins, R.D.3
Kheradpour, P.4
Stark, A.5
Harp, L.F.6
Ye, Z.7
Lee, L.K.8
Stuart, R.K.9
Ching, C.W.10
-
28
-
-
84936989258
-
Quantification of retinogenesis in 3D cultures reveals epigenetic memory and higher efficiency in iPSCs derived from rod photoreceptors
-
Hiler, D., Chen, X., Hazen, J., Kupriyanov, S., Carroll, P.A., Qu, C., Xu, B., Johnson, D., Griffiths, L., Frase, S., et al. Quantification of retinogenesis in 3D cultures reveals epigenetic memory and higher efficiency in iPSCs derived from rod photoreceptors. Cell Stem Cell 17 (2015), 101–115.
-
(2015)
Cell Stem Cell
, vol.17
, pp. 101-115
-
-
Hiler, D.1
Chen, X.2
Hazen, J.3
Kupriyanov, S.4
Carroll, P.A.5
Qu, C.6
Xu, B.7
Johnson, D.8
Griffiths, L.9
Frase, S.10
-
29
-
-
84988583074
-
Reprogramming of mouse retinal neurons and standardized quantification of their differentiation in 3D retinal cultures
-
Hiler, D.J., Barabas, M.E., Griffiths, L.M., Dyer, M.A., Reprogramming of mouse retinal neurons and standardized quantification of their differentiation in 3D retinal cultures. Nat. Protoc. 11 (2016), 1955–1976.
-
(2016)
Nat. Protoc.
, vol.11
, pp. 1955-1976
-
-
Hiler, D.J.1
Barabas, M.E.2
Griffiths, L.M.3
Dyer, M.A.4
-
30
-
-
84888015137
-
Super-enhancers in the control of cell identity and disease
-
Hnisz, D., Abraham, B.J., Lee, T.I., Lau, A., Saint-André, V., Sigova, A.A., Hoke, H.A., Young, R.A., Super-enhancers in the control of cell identity and disease. Cell 155 (2013), 934–947.
-
(2013)
Cell
, vol.155
, pp. 934-947
-
-
Hnisz, D.1
Abraham, B.J.2
Lee, T.I.3
Lau, A.4
Saint-André, V.5
Sigova, A.A.6
Hoke, H.A.7
Young, R.A.8
-
31
-
-
84907304074
-
The landscape of somatic mutations in epigenetic regulators across 1,000 paediatric cancer genomes
-
Huether, R., Dong, L., Chen, X., Wu, G., Parker, M., Wei, L., Ma, J., Edmonson, M.N., Hedlund, E.K., Rusch, M.C., et al. The landscape of somatic mutations in epigenetic regulators across 1,000 paediatric cancer genomes. Nat. Commun., 5, 2014, 3630.
-
(2014)
Nat. Commun.
, vol.5
, pp. 3630
-
-
Huether, R.1
Dong, L.2
Chen, X.3
Wu, G.4
Parker, M.5
Wei, L.6
Ma, J.7
Edmonson, M.N.8
Hedlund, E.K.9
Rusch, M.C.10
-
32
-
-
34047249978
-
Neuronal differentiation and synaptogenesis in retinoblastoma
-
Johnson, D.A., Zhang, J., Frase, S., Wilson, M., Rodriguez-Galindo, C., Dyer, M.A., Neuronal differentiation and synaptogenesis in retinoblastoma. Cancer Res. 67 (2007), 2701–2711.
-
(2007)
Cancer Res.
, vol.67
, pp. 2701-2711
-
-
Johnson, D.A.1
Zhang, J.2
Frase, S.3
Wilson, M.4
Rodriguez-Galindo, C.5
Dyer, M.A.6
-
33
-
-
84908156415
-
Translational biology of osteosarcoma
-
Kansara, M., Teng, M.W., Smyth, M.J., Thomas, D.M., Translational biology of osteosarcoma. Nat. Rev. Cancer 14 (2014), 722–735.
-
(2014)
Nat. Rev. Cancer
, vol.14
, pp. 722-735
-
-
Kansara, M.1
Teng, M.W.2
Smyth, M.J.3
Thomas, D.M.4
-
34
-
-
84933040183
-
Probing for a deeper understanding of rhabdomyosarcoma: insights from complementary model systems
-
Kashi, V.P., Hatley, M.E., Galindo, R.L., Probing for a deeper understanding of rhabdomyosarcoma: insights from complementary model systems. Nat. Rev. Cancer 15 (2015), 426–439.
-
(2015)
Nat. Rev. Cancer
, vol.15
, pp. 426-439
-
-
Kashi, V.P.1
Hatley, M.E.2
Galindo, R.L.3
-
35
-
-
0036079158
-
The human genome browser at UCSC
-
Kent, W.J., Sugnet, C.W., Furey, T.S., Roskin, K.M., Pringle, T.H., Zahler, A.M., Haussler, D., The human genome browser at UCSC. Genome Res. 12 (2002), 996–1006.
-
(2002)
Genome Res.
, vol.12
, pp. 996-1006
-
-
Kent, W.J.1
Sugnet, C.W.2
Furey, T.S.3
Roskin, K.M.4
Pringle, T.H.5
Zahler, A.M.6
Haussler, D.7
-
36
-
-
57449100870
-
Design and analysis of ChIP-seq experiments for DNA-binding proteins
-
Kharchenko, P.V., Tolstorukov, M.Y., Park, P.J., Design and analysis of ChIP-seq experiments for DNA-binding proteins. Nat. Biotechnol. 26 (2008), 1351–1359.
-
(2008)
Nat. Biotechnol.
, vol.26
, pp. 1351-1359
-
-
Kharchenko, P.V.1
Tolstorukov, M.Y.2
Park, P.J.3
-
37
-
-
77955449906
-
Epigenetic memory in induced pluripotent stem cells
-
Kim, K., Doi, A., Wen, B., Ng, K., Zhao, R., Cahan, P., Kim, J., Aryee, M.J., Ji, H., Ehrlich, L.I., et al. Epigenetic memory in induced pluripotent stem cells. Nature 467 (2010), 285–290.
-
(2010)
Nature
, vol.467
, pp. 285-290
-
-
Kim, K.1
Doi, A.2
Wen, B.3
Ng, K.4
Zhao, R.5
Cahan, P.6
Kim, J.7
Aryee, M.J.8
Ji, H.9
Ehrlich, L.I.10
-
38
-
-
84928982190
-
Photoreceptor cells display a daily rhythm in the orphan receptor Esrrβ
-
Kunst, S., Wolloscheck, T., Grether, M., Trunsch, P., Wolfrum, U., Spessert, R., Photoreceptor cells display a daily rhythm in the orphan receptor Esrrβ. Mol. Vis. 21 (2015), 173–184.
-
(2015)
Mol. Vis.
, vol.21
, pp. 173-184
-
-
Kunst, S.1
Wolloscheck, T.2
Grether, M.3
Trunsch, P.4
Wolfrum, U.5
Spessert, R.6
-
39
-
-
4243198352
-
Regulation of Otx2 expression and its functions in mouse forebrain and midbrain
-
Kurokawa, D., Kiyonari, H., Nakayama, R., Kimura-Yoshida, C., Matsuo, I., Aizawa, S., Regulation of Otx2 expression and its functions in mouse forebrain and midbrain. Development 131 (2004), 3319–3331.
-
(2004)
Development
, vol.131
, pp. 3319-3331
-
-
Kurokawa, D.1
Kiyonari, H.2
Nakayama, R.3
Kimura-Yoshida, C.4
Matsuo, I.5
Aizawa, S.6
-
40
-
-
84864877553
-
Wnt/β-catenin signalling in prostate cancer
-
Kypta, R.M., Waxman, J., Wnt/β-catenin signalling in prostate cancer. Nat. Rev. Urol. 9 (2012), 418–428.
-
(2012)
Nat. Rev. Urol.
, vol.9
, pp. 418-428
-
-
Kypta, R.M.1
Waxman, J.2
-
41
-
-
84896735766
-
voom: precision weights unlock linear model analysis tools for RNA-seq read counts
-
Law, C.W., Chen, Y., Shi, W., Smyth, G.K., voom: precision weights unlock linear model analysis tools for RNA-seq read counts. Genome Biol., 15, 2014, R29.
-
(2014)
Genome Biol.
, vol.15
, pp. R29
-
-
Law, C.W.1
Chen, Y.2
Shi, W.3
Smyth, G.K.4
-
42
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
Li, H., Durbin, R., Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25 (2009), 1754–1760.
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
43
-
-
68549104404
-
The Sequence Alignment/Map format and SAMtools
-
Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., 1000 Genome Project Data Processing Subgroup. The Sequence Alignment/Map format and SAMtools. Bioinformatics 25 (2009), 2078–2079.
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
Handsaker, B.2
Wysoker, A.3
Fennell, T.4
Ruan, J.5
Homer, N.6
Marth, G.7
Abecasis, G.8
Durbin, R.9
-
44
-
-
84879663784
-
Global epigenomic reconfiguration during mammalian brain development
-
Lister, R., Mukamel, E.A., Nery, J.R., Urich, M., Puddifoot, C.A., Johnson, N.D., Lucero, J., Huang, Y., Dwork, A.J., Schultz, M.D., et al. Global epigenomic reconfiguration during mammalian brain development. Science, 341, 2013, 1237905.
-
(2013)
Science
, vol.341
, pp. 1237905
-
-
Lister, R.1
Mukamel, E.A.2
Nery, J.R.3
Urich, M.4
Puddifoot, C.A.5
Johnson, N.D.6
Lucero, J.7
Huang, Y.8
Dwork, A.J.9
Schultz, M.D.10
-
45
-
-
84863565553
-
Bis-SNP: combined DNA methylation and SNP calling for Bisulfite-seq data
-
Liu, Y., Siegmund, K.D., Laird, P.W., Berman, B.P., Bis-SNP: combined DNA methylation and SNP calling for Bisulfite-seq data. Genome Biol., 13, 2012, R61.
-
(2012)
Genome Biol.
, vol.13
, pp. R61
-
-
Liu, Y.1
Siegmund, K.D.2
Laird, P.W.3
Berman, B.P.4
-
46
-
-
84876222028
-
Selective inhibition of tumor oncogenes by disruption of super-enhancers
-
Lovén, J., Hoke, H.A., Lin, C.Y., Lau, A., Orlando, D.A., Vakoc, C.R., Bradner, J.E., Lee, T.I., Young, R.A., Selective inhibition of tumor oncogenes by disruption of super-enhancers. Cell 153 (2013), 320–334.
-
(2013)
Cell
, vol.153
, pp. 320-334
-
-
Lovén, J.1
Hoke, H.A.2
Lin, C.Y.3
Lau, A.4
Orlando, D.A.5
Vakoc, C.R.6
Bradner, J.E.7
Lee, T.I.8
Young, R.A.9
-
47
-
-
84929684999
-
Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets
-
Macosko, E.Z., Basu, A., Satija, R., Nemesh, J., Shekhar, K., Goldman, M., Tirosh, I., Bialas, A.R., Kamitaki, N., Martersteck, E.M., et al. Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets. Cell 161 (2015), 1202–1214.
-
(2015)
Cell
, vol.161
, pp. 1202-1214
-
-
Macosko, E.Z.1
Basu, A.2
Satija, R.3
Nemesh, J.4
Shekhar, K.5
Goldman, M.6
Tirosh, I.7
Bialas, A.R.8
Kamitaki, N.9
Martersteck, E.M.10
-
48
-
-
34548009563
-
Retinoblastoma: from the two-hit hypothesis to targeted chemotherapy
-
MacPherson, D., Dyer, M.A., Retinoblastoma: from the two-hit hypothesis to targeted chemotherapy. Cancer Res. 67 (2007), 7547–7550.
-
(2007)
Cancer Res.
, vol.67
, pp. 7547-7550
-
-
MacPherson, D.1
Dyer, M.A.2
-
49
-
-
80255127234
-
Cutadapt removes adapter sequences from high-throughput sequencing reads
-
Martin, M., Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet.journal 17 (2011), 10–12.
-
(2011)
EMBnet.journal
, vol.17
, pp. 10-12
-
-
Martin, M.1
-
50
-
-
68949189407
-
Syntaxin 3 and SNAP-25 pairing, regulated by omega-3 docosahexaenoic acid, controls the delivery of rhodopsin for the biogenesis of cilia-derived sensory organelles, the rod outer segments
-
Mazelova, J., Ransom, N., Astuto-Gribble, L., Wilson, M.C., Deretic, D., Syntaxin 3 and SNAP-25 pairing, regulated by omega-3 docosahexaenoic acid, controls the delivery of rhodopsin for the biogenesis of cilia-derived sensory organelles, the rod outer segments. J. Cell Sci. 122 (2009), 2003–2013.
-
(2009)
J. Cell Sci.
, vol.122
, pp. 2003-2013
-
-
Mazelova, J.1
Ransom, N.2
Astuto-Gribble, L.3
Wilson, M.C.4
Deretic, D.5
-
51
-
-
79958815839
-
Coexpression of normally incompatible developmental pathways in retinoblastoma genesis
-
McEvoy, J., Flores-Otero, J., Zhang, J., Nemeth, K., Brennan, R., Bradley, C., Krafcik, F., Rodriguez-Galindo, C., Wilson, M., Xiong, S., et al. Coexpression of normally incompatible developmental pathways in retinoblastoma genesis. Cancer Cell 20 (2011), 260–275.
-
(2011)
Cancer Cell
, vol.20
, pp. 260-275
-
-
McEvoy, J.1
Flores-Otero, J.2
Zhang, J.3
Nemeth, K.4
Brennan, R.5
Bradley, C.6
Krafcik, F.7
Rodriguez-Galindo, C.8
Wilson, M.9
Xiong, S.10
-
52
-
-
84931066427
-
Epigenomic signatures of neuronal diversity in the mammalian brain
-
Mo, A., Mukamel, E.A., Davis, F.P., Luo, C., Henry, G.L., Picard, S., Urich, M.A., Nery, J.R., Sejnowski, T.J., Lister, R., et al. Epigenomic signatures of neuronal diversity in the mammalian brain. Neuron 86 (2015), 1369–1384.
-
(2015)
Neuron
, vol.86
, pp. 1369-1384
-
-
Mo, A.1
Mukamel, E.A.2
Davis, F.P.3
Luo, C.4
Henry, G.L.5
Picard, S.6
Urich, M.A.7
Nery, J.R.8
Sejnowski, T.J.9
Lister, R.10
-
53
-
-
84961864523
-
Epigenomic landscapes of retinal rods and cones
-
Mo, A., Luo, C., Davis, F.P., Mukamel, E.A., Henry, G.L., Nery, J.R., Urich, M.A., Picard, S., Lister, R., Eddy, S.R., et al. Epigenomic landscapes of retinal rods and cones. eLife, 5, 2016, e11613.
-
(2016)
eLife
, vol.5
, pp. e11613
-
-
Mo, A.1
Luo, C.2
Davis, F.P.3
Mukamel, E.A.4
Henry, G.L.5
Nery, J.R.6
Urich, M.A.7
Picard, S.8
Lister, R.9
Eddy, S.R.10
-
54
-
-
84880211540
-
TANGO: a generic tool for high-throughput 3D image analysis for studying nuclear organization
-
Ollion, J., Cochennec, J., Loll, F., Escudé, C., Boudier, T., TANGO: a generic tool for high-throughput 3D image analysis for studying nuclear organization. Bioinformatics 29 (2013), 1840–1841.
-
(2013)
Bioinformatics
, vol.29
, pp. 1840-1841
-
-
Ollion, J.1
Cochennec, J.2
Loll, F.3
Escudé, C.4
Boudier, T.5
-
55
-
-
79958252915
-
Chromatin connections to pluripotency and cellular reprogramming
-
Orkin, S.H., Hochedlinger, K., Chromatin connections to pluripotency and cellular reprogramming. Cell 145 (2011), 835–850.
-
(2011)
Cell
, vol.145
, pp. 835-850
-
-
Orkin, S.H.1
Hochedlinger, K.2
-
56
-
-
84962090418
-
2D and 3D stem cell models of primate cortical development identify species-specific differences in progenitor behavior contributing to brain size
-
Otani, T., Marchetto, M.C., Gage, F.H., Simons, B.D., Livesey, F.J., 2D and 3D stem cell models of primate cortical development identify species-specific differences in progenitor behavior contributing to brain size. Cell Stem Cell 18 (2016), 467–480.
-
(2016)
Cell Stem Cell
, vol.18
, pp. 467-480
-
-
Otani, T.1
Marchetto, M.C.2
Gage, F.H.3
Simons, B.D.4
Livesey, F.J.5
-
57
-
-
77951770756
-
BEDTools: a flexible suite of utilities for comparing genomic features
-
Quinlan, A.R., Hall, I.M., BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26 (2010), 841–842.
-
(2010)
Bioinformatics
, vol.26
, pp. 841-842
-
-
Quinlan, A.R.1
Hall, I.M.2
-
58
-
-
79961135005
-
R: A Language and Environment for Statistical Computing
-
R Foundation for Statistical Computing
-
R Core Team. R: A Language and Environment for Statistical Computing. 2011, R Foundation for Statistical Computing.
-
(2011)
-
-
-
59
-
-
78651271733
-
Integrative genomics viewer
-
Robinson, J.T., Thorvaldsdóttir, H., Winckler, W., Guttman, M., Lander, E.S., Getz, G., Mesirov, J.P., Integrative genomics viewer. Nat. Biotechnol. 29 (2011), 24–26.
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 24-26
-
-
Robinson, J.T.1
Thorvaldsdóttir, H.2
Winckler, W.3
Guttman, M.4
Lander, E.S.5
Getz, G.6
Mesirov, J.P.7
-
60
-
-
84994845765
-
Retinoblastoma
-
S. Orkin Elsevier
-
Rodriguez-Galindo, C., Wilson, M., Dyer, M., Retinoblastoma. Orkin, S., (eds.) Hematology and Oncology of Infancy and Childhood, 2015, Elsevier, 1747–1778.
-
(2015)
Hematology and Oncology of Infancy and Childhood
, pp. 1747-1778
-
-
Rodriguez-Galindo, C.1
Wilson, M.2
Dyer, M.3
-
61
-
-
46949102316
-
The transcriptome of retinal Müller glial cells
-
Roesch, K., Jadhav, A.P., Trimarchi, J.M., Stadler, M.B., Roska, B., Sun, B.B., Cepko, C.L., The transcriptome of retinal Müller glial cells. J. Comp. Neurol. 509 (2008), 225–238.
-
(2008)
J. Comp. Neurol.
, vol.509
, pp. 225-238
-
-
Roesch, K.1
Jadhav, A.P.2
Trimarchi, J.M.3
Stadler, M.B.4
Roska, B.5
Sun, B.B.6
Cepko, C.L.7
-
62
-
-
84863311216
-
Gene expression changes within Müller glial cells in retinitis pigmentosa
-
Roesch, K., Stadler, M.B., Cepko, C.L., Gene expression changes within Müller glial cells in retinitis pigmentosa. Mol. Vis. 18 (2012), 1197–1214.
-
(2012)
Mol. Vis.
, vol.18
, pp. 1197-1214
-
-
Roesch, K.1
Stadler, M.B.2
Cepko, C.L.3
-
63
-
-
33644966507
-
Influence of photoperiodic history on clock genes and the circadian pacemaker in the rat retina
-
Rohleder, N., Langer, C., Maus, C., Spiwoks-Becker, I., Emser, A., Engel, L., Spessert, R., Influence of photoperiodic history on clock genes and the circadian pacemaker in the rat retina. Eur. J. Neurosci. 23 (2006), 105–111.
-
(2006)
Eur. J. Neurosci.
, vol.23
, pp. 105-111
-
-
Rohleder, N.1
Langer, C.2
Maus, C.3
Spiwoks-Becker, I.4
Emser, A.5
Engel, L.6
Spessert, R.7
-
64
-
-
84960349182
-
Models of human core transcriptional regulatory circuitries
-
Saint-André, V., Federation, A.J., Lin, C.Y., Abraham, B.J., Reddy, J., Lee, T.I., Bradner, J.E., Young, R.A., Models of human core transcriptional regulatory circuitries. Genome Res. 26 (2016), 385–396.
-
(2016)
Genome Res.
, vol.26
, pp. 385-396
-
-
Saint-André, V.1
Federation, A.J.2
Lin, C.Y.3
Abraham, B.J.4
Reddy, J.5
Lee, T.I.6
Bradner, J.E.7
Young, R.A.8
-
65
-
-
84895879439
-
Otx2 ChIP-seq reveals unique and redundant functions in the mature mouse retina
-
Samuel, A., Housset, M., Fant, B., Lamonerie, T., Otx2 ChIP-seq reveals unique and redundant functions in the mature mouse retina. PLoS ONE, 9, 2014, e89110.
-
(2014)
PLoS ONE
, vol.9
, pp. e89110
-
-
Samuel, A.1
Housset, M.2
Fant, B.3
Lamonerie, T.4
-
66
-
-
84862520770
-
Fiji: an open-source platform for biological-image analysis
-
Schindelin, J., Arganda-Carreras, I., Frise, E., Kaynig, V., Longair, M., Pietzsch, T., Preibisch, S., Rueden, C., Saalfeld, S., Schmid, B., et al. Fiji: an open-source platform for biological-image analysis. Nat. Methods 9 (2012), 676–682.
-
(2012)
Nat. Methods
, vol.9
, pp. 676-682
-
-
Schindelin, J.1
Arganda-Carreras, I.2
Frise, E.3
Kaynig, V.4
Longair, M.5
Pietzsch, T.6
Preibisch, S.7
Rueden, C.8
Saalfeld, S.9
Schmid, B.10
-
67
-
-
84924875394
-
The role of chromosome domains in shaping the functional genome
-
Sexton, T., Cavalli, G., The role of chromosome domains in shaping the functional genome. Cell 160 (2015), 1049–1059.
-
(2015)
Cell
, vol.160
, pp. 1049-1059
-
-
Sexton, T.1
Cavalli, G.2
-
68
-
-
84857658829
-
Transcriptional code and disease map for adult retinal cell types
-
S1–S2
-
Siegert, S., Cabuy, E., Scherf, B.G., Kohler, H., Panda, S., Le, Y.Z., Fehling, H.J., Gaidatzis, D., Stadler, M.B., Roska, B., Transcriptional code and disease map for adult retinal cell types. Nat. Neurosci. 15 (2012), 487–495 S1–S2.
-
(2012)
Nat. Neurosci.
, vol.15
, pp. 487-495
-
-
Siegert, S.1
Cabuy, E.2
Scherf, B.G.3
Kohler, H.4
Panda, S.5
Le, Y.Z.6
Fehling, H.J.7
Gaidatzis, D.8
Stadler, M.B.9
Roska, B.10
-
69
-
-
85017554383
-
Dnmt1, Dnmt3a and Dnmt3b cooperate in photoreceptor and outer plexiform layer development in the mammalian retina
-
Published online November 16, 2016
-
Singh, R.K., Mallela, R.K., Hayes, A., Dunham, N.R., Hedden, M.E., Enke, R.A., Fariss, R.N., Sternberg, H., West, M.D., Nasonkin, I.O., Dnmt1, Dnmt3a and Dnmt3b cooperate in photoreceptor and outer plexiform layer development in the mammalian retina. Exp. Eye Res., 2016, 10.1016/j.exer.2016.11.014 Published online November 16, 2016.
-
(2016)
Exp. Eye Res.
-
-
Singh, R.K.1
Mallela, R.K.2
Hayes, A.3
Dunham, N.R.4
Hedden, M.E.5
Enke, R.A.6
Fariss, R.N.7
Sternberg, H.8
West, M.D.9
Nasonkin, I.O.10
-
70
-
-
64249139170
-
Nuclear architecture of rod photoreceptor cells adapts to vision in mammalian evolution
-
Solovei, I., Kreysing, M., Lanctôt, C., Kösem, S., Peichl, L., Cremer, T., Guck, J., Joffe, B., Nuclear architecture of rod photoreceptor cells adapts to vision in mammalian evolution. Cell 137 (2009), 356–368.
-
(2009)
Cell
, vol.137
, pp. 356-368
-
-
Solovei, I.1
Kreysing, M.2
Lanctôt, C.3
Kösem, S.4
Peichl, L.5
Cremer, T.6
Guck, J.7
Joffe, B.8
-
71
-
-
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 (2012), 994–1004.
-
(2012)
Cell
, vol.151
, pp. 994-1004
-
-
Soufi, A.1
Donahue, G.2
Zaret, K.S.3
-
72
-
-
84959482267
-
The Childhood Solid Tumor Network: a new resource for the developmental biology and oncology research communities
-
Stewart, E., Federico, S., Karlstrom, A., Shelat, A., Sablauer, A., Pappo, A., Dyer, M.A., The Childhood Solid Tumor Network: a new resource for the developmental biology and oncology research communities. Dev. Biol. 411 (2016), 287–293.
-
(2016)
Dev. Biol.
, vol.411
, pp. 287-293
-
-
Stewart, E.1
Federico, S.2
Karlstrom, A.3
Shelat, A.4
Sablauer, A.5
Pappo, A.6
Dyer, M.A.7
-
73
-
-
77954879972
-
Transcriptional regulation of photoreceptor development and homeostasis in the mammalian retina
-
Swaroop, A., Kim, D., Forrest, D., Transcriptional regulation of photoreceptor development and homeostasis in the mammalian retina. Nat. Rev. Neurosci. 11 (2010), 563–576.
-
(2010)
Nat. Rev. Neurosci.
, vol.11
, pp. 563-576
-
-
Swaroop, A.1
Kim, D.2
Forrest, D.3
-
74
-
-
84865755978
-
The accessible chromatin landscape of the human genome
-
Thurman, R.E., Rynes, E., Humbert, R., Vierstra, J., Maurano, M.T., Haugen, E., Sheffield, N.C., Stergachis, A.B., Wang, H., Vernot, B., et al. The accessible chromatin landscape of the human genome. Nature 489 (2012), 75–82.
-
(2012)
Nature
, vol.489
, pp. 75-82
-
-
Thurman, R.E.1
Rynes, E.2
Humbert, R.3
Vierstra, J.4
Maurano, M.T.5
Haugen, E.6
Sheffield, N.C.7
Stergachis, A.B.8
Wang, H.9
Vernot, B.10
-
75
-
-
77952123055
-
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
-
Trapnell, C., Williams, B.A., Pertea, G., Mortazavi, A., Kwan, G., van Baren, M.J., Salzberg, S.L., Wold, B.J., Pachter, L., Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat. Biotechnol. 28 (2010), 511–515.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 511-515
-
-
Trapnell, C.1
Williams, B.A.2
Pertea, G.3
Mortazavi, A.4
Kwan, G.5
van Baren, M.J.6
Salzberg, S.L.7
Wold, B.J.8
Pachter, L.9
-
76
-
-
34249307504
-
Molecular heterogeneity of developing retinal ganglion and amacrine cells revealed through single cell gene expression profiling
-
Trimarchi, J.M., Stadler, M.B., Roska, B., Billings, N., Sun, B., Bartch, B., Cepko, C.L., Molecular heterogeneity of developing retinal ganglion and amacrine cells revealed through single cell gene expression profiling. J. Comp. Neurol. 502 (2007), 1047–1065.
-
(2007)
J. Comp. Neurol.
, vol.502
, pp. 1047-1065
-
-
Trimarchi, J.M.1
Stadler, M.B.2
Roska, B.3
Billings, N.4
Sun, B.5
Bartch, B.6
Cepko, C.L.7
-
77
-
-
45449085696
-
Individual retinal progenitor cells display extensive heterogeneity of gene expression
-
Trimarchi, J.M., Stadler, M.B., Cepko, C.L., Individual retinal progenitor cells display extensive heterogeneity of gene expression. PLoS ONE, 3, 2008, e1588.
-
(2008)
PLoS ONE
, vol.3
, pp. e1588
-
-
Trimarchi, J.M.1
Stadler, M.B.2
Cepko, C.L.3
-
78
-
-
84879260661
-
A double take on bivalent promoters
-
Voigt, P., Tee, W.W., Reinberg, D., A double take on bivalent promoters. Genes Dev. 27 (2013), 1318–1338.
-
(2013)
Genes Dev.
, vol.27
, pp. 1318-1338
-
-
Voigt, P.1
Tee, W.W.2
Reinberg, D.3
-
79
-
-
85018761051
-
ggplot2—Elegant Graphics for Data Analysis
-
Springer
-
Wickham, H. ggplot2—Elegant Graphics for Data Analysis. 2009, Springer.
-
(2009)
-
-
-
80
-
-
84876216563
-
Master transcription factors and mediator establish super-enhancers at key cell identity genes
-
Whyte, W.A., Orlando, D.A., Hnisz, D., Abraham, B.J., Lin, C.Y., Kagey, M.H., Rahl, P.B., Lee, T.I., Young, R.A., Master transcription factors and mediator establish super-enhancers at key cell identity genes. Cell 153 (2013), 307–319.
-
(2013)
Cell
, vol.153
, pp. 307-319
-
-
Whyte, W.A.1
Orlando, D.A.2
Hnisz, D.3
Abraham, B.J.4
Lin, C.Y.5
Kagey, M.H.6
Rahl, P.B.7
Lee, T.I.8
Young, R.A.9
-
81
-
-
84876535935
-
Modeling transformations of neurodevelopmental sequences across mammalian species
-
Workman, A.D., Charvet, C.J., Clancy, B., Darlington, R.B., Finlay, B.L., Modeling transformations of neurodevelopmental sequences across mammalian species. J. Neurosci. 33 (2013), 7368–7383.
-
(2013)
J. Neurosci.
, vol.33
, pp. 7368-7383
-
-
Workman, A.D.1
Charvet, C.J.2
Clancy, B.3
Darlington, R.B.4
Finlay, B.L.5
-
82
-
-
68949141599
-
BSMAP: whole genome bisulfite sequence MAPping program
-
Xi, Y., Li, W., BSMAP: whole genome bisulfite sequence MAPping program. BMC Bioinformatics, 10, 2009, 232.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 232
-
-
Xi, Y.1
Li, W.2
-
83
-
-
0021679078
-
Cell death during differentiation of the retina in the mouse
-
Young, R.W., Cell death during differentiation of the retina in the mouse. J. Comp. Neurol. 229 (1984), 362–373.
-
(1984)
J. Comp. Neurol.
, vol.229
, pp. 362-373
-
-
Young, R.W.1
-
84
-
-
0021830601
-
Cell differentiation in the retina of the mouse
-
Young, R.W., Cell differentiation in the retina of the mouse. Anat. Rec. 212 (1985), 199–205.
-
(1985)
Anat. Rec.
, vol.212
, pp. 199-205
-
-
Young, R.W.1
-
85
-
-
0022103952
-
Cell proliferation during postnatal development of the retina in the mouse
-
Young, R.W., Cell proliferation during postnatal development of the retina in the mouse. Brain Res. 353 (1985), 229–239.
-
(1985)
Brain Res.
, vol.353
, pp. 229-239
-
-
Young, R.W.1
-
86
-
-
56749163207
-
Foxj1 transcription factors are master regulators of the motile ciliogenic program
-
Yu, X., Ng, C.P., Habacher, H., Roy, S., Foxj1 transcription factors are master regulators of the motile ciliogenic program. Nat. Genet. 40 (2008), 1445–1453.
-
(2008)
Nat. Genet.
, vol.40
, pp. 1445-1453
-
-
Yu, X.1
Ng, C.P.2
Habacher, H.3
Roy, S.4
-
87
-
-
67650711619
-
A clustering approach for identification of enriched domains from histone modification ChIP-Seq data
-
Zang, C., Schones, D.E., Zeng, C., Cui, K., Zhao, K., Peng, W., A clustering approach for identification of enriched domains from histone modification ChIP-Seq data. Bioinformatics 25 (2009), 1952–1958.
-
(2009)
Bioinformatics
, vol.25
, pp. 1952-1958
-
-
Zang, C.1
Schones, D.E.2
Zeng, C.3
Cui, K.4
Zhao, K.5
Peng, W.6
-
88
-
-
80051564877
-
Epigenetic signatures distinguish multiple classes of enhancers with distinct cellular functions
-
Zentner, G.E., Tesar, P.J., Scacheri, P.C., Epigenetic signatures distinguish multiple classes of enhancers with distinct cellular functions. Genome Res. 21 (2011), 1273–1283.
-
(2011)
Genome Res.
, vol.21
, pp. 1273-1283
-
-
Zentner, G.E.1
Tesar, P.J.2
Scacheri, P.C.3
-
89
-
-
53849146020
-
Model-based analysis of ChIP-Seq (MACS)
-
Zhang, Y., Liu, T., Meyer, C.A., Eeckhoute, J., Johnson, D.S., Bernstein, B.E., Nusbaum, C., Myers, R.M., Brown, M., Li, W., Liu, X.S., Model-based analysis of ChIP-Seq (MACS). Genome Biol., 9, 2008, R137.
-
(2008)
Genome Biol.
, vol.9
, pp. R137
-
-
Zhang, Y.1
Liu, T.2
Meyer, C.A.3
Eeckhoute, J.4
Johnson, D.S.5
Bernstein, B.E.6
Nusbaum, C.7
Myers, R.M.8
Brown, M.9
Li, W.10
Liu, X.S.11
-
90
-
-
84862777113
-
A novel retinoblastoma therapy from genomic and epigenetic analyses
-
Zhang, J., Benavente, C.A., McEvoy, J., Flores-Otero, J., Ding, L., Chen, X., Ulyanov, A., Wu, G., Wilson, M., Wang, J., et al. A novel retinoblastoma therapy from genomic and epigenetic analyses. Nature 481 (2012), 329–334.
-
(2012)
Nature
, vol.481
, pp. 329-334
-
-
Zhang, J.1
Benavente, C.A.2
McEvoy, J.3
Flores-Otero, J.4
Ding, L.5
Chen, X.6
Ulyanov, A.7
Wu, G.8
Wilson, M.9
Wang, J.10
-
91
-
-
84897373336
-
CrossMap: a versatile tool for coordinate conversion between genome assemblies
-
Published online December 8, 2013
-
Zhao, H., Sun, Z., Wang, J., Huang, H., Kocher, J.P., Wang, L., CrossMap: a versatile tool for coordinate conversion between genome assemblies. Bioinformatics 30 (2014), 1006–1007 Published online December 8, 2013.
-
(2014)
Bioinformatics
, vol.30
, pp. 1006-1007
-
-
Zhao, H.1
Sun, Z.2
Wang, J.3
Huang, H.4
Kocher, J.P.5
Wang, L.6
-
92
-
-
84923382398
-
Dissecting neural differentiation regulatory networks through epigenetic footprinting
-
Ziller, M.J., Edri, R., Yaffe, Y., Donaghey, J., Pop, R., Mallard, W., Issner, R., Gifford, C.A., Goren, A., Xing, J., et al. Dissecting neural differentiation regulatory networks through epigenetic footprinting. Nature 518 (2015), 355–359.
-
(2015)
Nature
, vol.518
, pp. 355-359
-
-
Ziller, M.J.1
Edri, R.2
Yaffe, Y.3
Donaghey, J.4
Pop, R.5
Mallard, W.6
Issner, R.7
Gifford, C.A.8
Goren, A.9
Xing, J.10
-
93
-
-
84857758814
-
Consistency test of the cell cycle: roles for p53 and EGR1
-
Zwang, Y., Oren, M., Yarden, Y., Consistency test of the cell cycle: roles for p53 and EGR1. Cancer Res. 72 (2012), 1051–1054.
-
(2012)
Cancer Res.
, vol.72
, pp. 1051-1054
-
-
Zwang, Y.1
Oren, M.2
Yarden, Y.3
|