-
1
-
-
84959255113
-
Parallel single-cell sequencing links transcriptional and epigenetic heterogeneity
-
Angermueller, C., Clark, S.J., Lee, H.J., Macaulay, I.C., Teng, M.J., Hu, T.X., Krueger, F., Smallwood, S.A., Ponting, C.P., Voet, T., et al. Parallel single-cell sequencing links transcriptional and epigenetic heterogeneity. Nat. Methods 13 (2016), 229–232.
-
(2016)
Nat. Methods
, vol.13
, pp. 229-232
-
-
Angermueller, C.1
Clark, S.J.2
Lee, H.J.3
Macaulay, I.C.4
Teng, M.J.5
Hu, T.X.6
Krueger, F.7
Smallwood, S.A.8
Ponting, C.P.9
Voet, T.10
-
2
-
-
85018466550
-
DeepCpG: accurate prediction of single-cell DNA methylation states using deep learning
-
Angermueller, C., Lee, H.J., Reik, W., Stegle, O., DeepCpG: accurate prediction of single-cell DNA methylation states using deep learning. Genome Biol., 18, 2017, 67.
-
(2017)
Genome Biol.
, vol.18
, pp. 67
-
-
Angermueller, C.1
Lee, H.J.2
Reik, W.3
Stegle, O.4
-
3
-
-
0034474225
-
Characterization of human and mouse H19 regulatory sequences
-
Banet, G., Bibi, O., Matouk, I., Ayesh, S., Laster, M., Molner Kimber, K., Tykocinski, M., de Groot, N., Hochberg, A., Ohana, P., Characterization of human and mouse H19 regulatory sequences. Mol. Biol. Rep. 27 (2000), 157–165.
-
(2000)
Mol. Biol. Rep.
, vol.27
, pp. 157-165
-
-
Banet, G.1
Bibi, O.2
Matouk, I.3
Ayesh, S.4
Laster, M.5
Molner Kimber, K.6
Tykocinski, M.7
de Groot, N.8
Hochberg, A.9
Ohana, P.10
-
4
-
-
84914817989
-
MethylExtract: high-Quality methylation maps and SNV calling from whole genome bisulfite sequencing data
-
Barturen, G., Rueda, A., Oliver, J.L., Hackenberg, M., MethylExtract: high-Quality methylation maps and SNV calling from whole genome bisulfite sequencing data. Version 2. F1000Res., 2, 2014, 217.
-
(2014)
Version 2. F1000Res.
, vol.2
, pp. 217
-
-
Barturen, G.1
Rueda, A.2
Oliver, J.L.3
Hackenberg, M.4
-
5
-
-
84857873445
-
Hematopoietic stem cell subtypes expand differentially during development and display distinct lymphopoietic programs
-
Benz, C., Copley, M.R., Kent, D.G., Wohrer, S., Cortes, A., Aghaeepour, N., Ma, E., Mader, H., Rowe, K., Day, C., et al. Hematopoietic stem cell subtypes expand differentially during development and display distinct lymphopoietic programs. Cell Stem Cell 10 (2012), 273–283.
-
(2012)
Cell Stem Cell
, vol.10
, pp. 273-283
-
-
Benz, C.1
Copley, M.R.2
Kent, D.G.3
Wohrer, S.4
Cortes, A.5
Aghaeepour, N.6
Ma, E.7
Mader, H.8
Rowe, K.9
Day, C.10
-
6
-
-
84865369147
-
DNA methylation dynamics during in vivo differentiation of blood and skin stem cells
-
Bock, C., Beerman, I., Lien, W.-H., Smith, Z.D., Gu, H., Boyle, P., Gnirke, A., Fuchs, E., Rossi, D.J., Meissner, A., DNA methylation dynamics during in vivo differentiation of blood and skin stem cells. Mol. Cell 47 (2012), 633–647.
-
(2012)
Mol. Cell
, vol.47
, pp. 633-647
-
-
Bock, C.1
Beerman, I.2
Lien, W.-H.3
Smith, Z.D.4
Gu, H.5
Boyle, P.6
Gnirke, A.7
Fuchs, E.8
Rossi, D.J.9
Meissner, A.10
-
7
-
-
84856561659
-
Control-FREEC: a tool for assessing copy number and allelic content using next-generation sequencing data
-
Boeva, V., Popova, T., Bleakley, K., Chiche, P., Cappo, J., Schleiermacher, G., Janoueix-Lerosey, I., Delattre, O., Barillot, E., Control-FREEC: a tool for assessing copy number and allelic content using next-generation sequencing data. Bioinformatics 28 (2012), 423–425.
-
(2012)
Bioinformatics
, vol.28
, pp. 423-425
-
-
Boeva, V.1
Popova, T.2
Bleakley, K.3
Chiche, P.4
Cappo, J.5
Schleiermacher, G.6
Janoueix-Lerosey, I.7
Delattre, O.8
Barillot, E.9
-
8
-
-
85013995250
-
Effects of prenatal exposure to endocrine disruptors and toxic metals on the fetal epigenome
-
Bommarito, P.A., Martin, E., Fry, R.C., Effects of prenatal exposure to endocrine disruptors and toxic metals on the fetal epigenome. Epigenomics 9 (2017), 333–350.
-
(2017)
Epigenomics
, vol.9
, pp. 333-350
-
-
Bommarito, P.A.1
Martin, E.2
Fry, R.C.3
-
9
-
-
79251567720
-
DNA methylation of the first exon is tightly linked to transcriptional silencing
-
Brenet, F., Moh, M., Funk, P., Feierstein, E., Viale, A.J., Socci, N.D., Scandura, J.M., DNA methylation of the first exon is tightly linked to transcriptional silencing. PLoS One, 6, 2011, e14524.
-
(2011)
PLoS One
, vol.6
, pp. e14524
-
-
Brenet, F.1
Moh, M.2
Funk, P.3
Feierstein, E.4
Viale, A.J.5
Socci, N.D.6
Scandura, J.M.7
-
10
-
-
84922541996
-
Identification of regulatory networks in HSCs and their immediate progeny via integrated proteome, transcriptome, and DNA methylome analysis
-
Cabezas-Wallscheid, N., Klimmeck, D., Hansson, J., Lipka, D.B., Reyes, A., Wang, Q., Weichenhan, D., Lier, A., von Paleske, L., Renders, S., et al. Identification of regulatory networks in HSCs and their immediate progeny via integrated proteome, transcriptome, and DNA methylome analysis. Cell Stem Cell 15 (2014), 507–522.
-
(2014)
Cell Stem Cell
, vol.15
, pp. 507-522
-
-
Cabezas-Wallscheid, N.1
Klimmeck, D.2
Hansson, J.3
Lipka, D.B.4
Reyes, A.5
Wang, Q.6
Weichenhan, D.7
Lier, A.8
von Paleske, L.9
Renders, S.10
-
11
-
-
33750321808
-
Identification of a molecular signature for leukemic promyelocytes and their normal counterparts: focus on DNA repair genes
-
Casorelli, I., Tenedini, E., Tagliafico, E., Blasi, M.F., Giuliani, A., Crescenzi, M., Pelosi, E., Testa, U., Peschle, C., Mele, L., et al. Identification of a molecular signature for leukemic promyelocytes and their normal counterparts: focus on DNA repair genes. Leukemia 20 (2006), 1978–1988.
-
(2006)
Leukemia
, vol.20
, pp. 1978-1988
-
-
Casorelli, I.1
Tenedini, E.2
Tagliafico, E.3
Blasi, M.F.4
Giuliani, A.5
Crescenzi, M.6
Pelosi, E.7
Testa, U.8
Peschle, C.9
Mele, L.10
-
12
-
-
84555207349
-
Dnmt3a is essential for hematopoietic stem cell differentiation
-
Challen, G.A., Sun, D., Jeong, M., Luo, M., Jelinek, J., Berg, J.S., Bock, C., Vasanthakumar, A., Gu, H., Xi, Y., et al. Dnmt3a is essential for hematopoietic stem cell differentiation. Nat. Genet. 44 (2012), 23–31.
-
(2012)
Nat. Genet.
, vol.44
, pp. 23-31
-
-
Challen, G.A.1
Sun, D.2
Jeong, M.3
Luo, M.4
Jelinek, J.5
Berg, J.S.6
Bock, C.7
Vasanthakumar, A.8
Gu, H.9
Xi, Y.10
-
13
-
-
85053863462
-
-
Modification of DNA on magnetic beads. US patent US, filed January 30 and published August 1., 2013, 2013
-
Domanico, M.J., Allawi, H., Lidgard, G.P., Aizenstein, B., Hunt, O., and Zutz, T.C. (2013). Modification of DNA on magnetic beads. US patent US9315853, filed January 30, 2013, and published August 1, 2013.
-
(2013)
-
-
Domanico, M.J.1
Allawi, H.2
Lidgard, G.P.3
Aizenstein, B.4
Hunt, O.5
Zutz, T.C.6
-
14
-
-
84856738988
-
Hematopoiesis: a human perspective
-
Doulatov, S., Notta, F., Laurenti, E., Dick, J.E., Hematopoiesis: a human perspective. Cell Stem Cell 10 (2012), 120–136.
-
(2012)
Cell Stem Cell
, vol.10
, pp. 120-136
-
-
Doulatov, S.1
Notta, F.2
Laurenti, E.3
Dick, J.E.4
-
15
-
-
34547692981
-
Long-term propagation of distinct hematopoietic differentiation programs in vivo
-
Dykstra, B., Kent, D., Bowie, M., McCaffrey, L., Hamilton, M., Lyons, K., Lee, S.-J., Brinkman, R., Eaves, C., Long-term propagation of distinct hematopoietic differentiation programs in vivo. Cell Stem Cell 1 (2007), 218–229.
-
(2007)
Cell Stem Cell
, vol.1
, pp. 218-229
-
-
Dykstra, B.1
Kent, D.2
Bowie, M.3
McCaffrey, L.4
Hamilton, M.5
Lyons, K.6
Lee, S.-J.7
Brinkman, R.8
Eaves, C.9
-
16
-
-
84928342976
-
Hematopoietic stem cells: concepts, definitions, and the new reality
-
Eaves, C.J., Hematopoietic stem cells: concepts, definitions, and the new reality. Blood 125 (2015), 2605–2613.
-
(2015)
Blood
, vol.125
, pp. 2605-2613
-
-
Eaves, C.J.1
-
17
-
-
33751505540
-
DNA methylation profiling of human chromosomes 6, 20 and 22
-
Eckhardt, F., Lewin, J., Cortese, R., Rakyan, V.K., Attwood, J., Burger, M., Burton, J., Cox, T.V., Davies, R., Down, T.A., et al. DNA methylation profiling of human chromosomes 6, 20 and 22. Nat. Genet. 38 (2006), 1378–1385.
-
(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
-
18
-
-
84924601067
-
Single-cell DNA methylome sequencing and bioinformatic inference of epigenomic cell-state dynamics
-
Farlik, M., Sheffield, N.C., Nuzzo, A., Datlinger, P., Schönegger, A., Klughammer, J., Bock, C., Single-cell DNA methylome sequencing and bioinformatic inference of epigenomic cell-state dynamics. Cell Rep. 10 (2015), 1386–1397.
-
(2015)
Cell Rep.
, vol.10
, pp. 1386-1397
-
-
Farlik, M.1
Sheffield, N.C.2
Nuzzo, A.3
Datlinger, P.4
Schönegger, A.5
Klughammer, J.6
Bock, C.7
-
19
-
-
85000730490
-
DNA methylation dynamics of human hematopoietic stem cell differentiation
-
Farlik, M., Halbritter, F., Müller, F., Choudry, F.A.A., Ebert, P., Klughammer, J., Farrow, S., Santoro, A., Ciaurro, V., Mathur, A., et al. DNA methylation dynamics of human hematopoietic stem cell differentiation. Cell Stem Cell 19 (2016), 808–822.
-
(2016)
Cell Stem Cell
, vol.19
, pp. 808-822
-
-
Farlik, M.1
Halbritter, F.2
Müller, F.3
Choudry, F.A.A.4
Ebert, P.5
Klughammer, J.6
Farrow, S.7
Santoro, A.8
Ciaurro, V.9
Mathur, A.10
-
20
-
-
84859220861
-
A differentially methylated single CpG-site is correlated with estrogen receptor alpha transcription
-
Fürst, R.W., Kliem, H., Meyer, H.H.D., Ulbrich, S.E., A differentially methylated single CpG-site is correlated with estrogen receptor alpha transcription. J. Steroid Biochem. Mol. Biol. 130 (2012), 96–104.
-
(2012)
J. Steroid Biochem. Mol. Biol.
, vol.130
, pp. 96-104
-
-
Fürst, R.W.1
Kliem, H.2
Meyer, H.H.D.3
Ulbrich, S.E.4
-
21
-
-
84923348351
-
Epigenetic and transcriptional determinants of the human breast
-
Gascard, P., Bilenky, M., Sigaroudinia, M., Zhao, J., Li, L., Carles, A., Delaney, A., Tam, A., Kamoh, B., Cho, S., et al. Epigenetic and transcriptional determinants of the human breast. Nat. Commun., 6, 2015, 6351.
-
(2015)
Nat. Commun.
, vol.6
, pp. 6351
-
-
Gascard, P.1
Bilenky, M.2
Sigaroudinia, M.3
Zhao, J.4
Li, L.5
Carles, A.6
Delaney, A.7
Tam, A.8
Kamoh, B.9
Cho, S.10
-
22
-
-
80052306947
-
Analysis of DNA methylation in a three-generation family reveals widespread genetic influence on epigenetic regulation
-
e1002228
-
Gertz, J., Varley, K.E., Reddy, T.E., Bowling, K.M., Pauli, F., Parker, S.L., Kucera, K.S., Willard, H.F., Myers, R.M., Analysis of DNA methylation in a three-generation family reveals widespread genetic influence on epigenetic regulation. PLoS Genet., 7, 2011 e1002228.
-
(2011)
PLoS Genet.
, vol.7
-
-
Gertz, J.1
Varley, K.E.2
Reddy, T.E.3
Bowling, K.M.4
Pauli, F.5
Parker, S.L.6
Kucera, K.S.7
Willard, H.F.8
Myers, R.M.9
-
23
-
-
84866853818
-
BSmooth: from whole genome bisulfite sequencing reads to differentially methylated regions
-
Hansen, K.D., Langmead, B., Irizarry, R.A., BSmooth: from whole genome bisulfite sequencing reads to differentially methylated regions. Genome Biol., 13, 2012, R83.
-
(2012)
Genome Biol.
, vol.13
, pp. R83
-
-
Hansen, K.D.1
Langmead, B.2
Irizarry, R.A.3
-
24
-
-
84875999020
-
Regulated transcription of human matrix metalloproteinase 13 (MMP13) and interleukin-1β (IL1B) genes in chondrocytes depends on methylation of specific proximal promoter CpG sites
-
Hashimoto, K., Otero, M., Imagawa, K., de Andrés, M.C., Coico, J.M., Roach, H.I., Oreffo, R.O.C., Marcu, K.B., Goldring, M.B., Regulated transcription of human matrix metalloproteinase 13 (MMP13) and interleukin-1β (IL1B) genes in chondrocytes depends on methylation of specific proximal promoter CpG sites. J. Biol. Chem. 288 (2013), 10061–10072.
-
(2013)
J. Biol. Chem.
, vol.288
, pp. 10061-10072
-
-
Hashimoto, K.1
Otero, M.2
Imagawa, K.3
de Andrés, M.C.4
Coico, J.M.5
Roach, H.I.6
Oreffo, R.O.C.7
Marcu, K.B.8
Goldring, M.B.9
-
25
-
-
77952567987
-
Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities
-
Heinz, S., Benner, C., Spann, N., Bertolino, E., Lin, Y.C., Laslo, P., Cheng, J.X., Murre, C., Singh, H., Glass, C.K., Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. Mol. Cell 38 (2010), 576–589.
-
(2010)
Mol. Cell
, vol.38
, pp. 576-589
-
-
Heinz, S.1
Benner, C.2
Spann, N.3
Bertolino, E.4
Lin, Y.C.5
Laslo, P.6
Cheng, J.X.7
Murre, C.8
Singh, H.9
Glass, C.K.10
-
26
-
-
84885021247
-
Epigenetic memory at embryonic enhancers identified in DNA methylation maps from adult mouse tissues
-
Hon, G.C., Rajagopal, N., Shen, Y., McCleary, D.F., Yue, F., Dang, M.D., Ren, B., Epigenetic memory at embryonic enhancers identified in DNA methylation maps from adult mouse tissues. Nat. Genet. 45 (2013), 1198–1206.
-
(2013)
Nat. Genet.
, vol.45
, pp. 1198-1206
-
-
Hon, G.C.1
Rajagopal, N.2
Shen, Y.3
McCleary, D.F.4
Yue, F.5
Dang, M.D.6
Ren, B.7
-
27
-
-
84886111619
-
DNA methylation age of human tissues and cell types
-
Horvath, S., DNA methylation age of human tissues and cell types. Genome Biol., 14, 2013, R115.
-
(2013)
Genome Biol.
, vol.14
, pp. R115
-
-
Horvath, S.1
-
28
-
-
84960091878
-
Single-cell triple omics sequencing reveals genetic, epigenetic, and transcriptomic heterogeneity in hepatocellular carcinomas
-
Hou, Y., Guo, H., Cao, C., Li, X., Hu, B., Zhu, P., Wu, X., Wen, L., Tang, F., Huang, Y., et al. Single-cell triple omics sequencing reveals genetic, epigenetic, and transcriptomic heterogeneity in hepatocellular carcinomas. Cell Res. 26 (2016), 304–319.
-
(2016)
Cell Res.
, vol.26
, pp. 304-319
-
-
Hou, Y.1
Guo, H.2
Cao, C.3
Li, X.4
Hu, B.5
Zhu, P.6
Wu, X.7
Wen, L.8
Tang, F.9
Huang, Y.10
-
29
-
-
84965048064
-
Simultaneous profiling of transcriptome and DNA methylome from a single cell
-
Hu, Y., Huang, K., An, Q., Du, G., Hu, G., Xue, J., Zhu, X., Wang, C.-Y., Xue, Z., Fan, G., Simultaneous profiling of transcriptome and DNA methylome from a single cell. Genome Biol., 17, 2016, 88.
-
(2016)
Genome Biol.
, vol.17
, pp. 88
-
-
Hu, Y.1
Huang, K.2
An, Q.3
Du, G.4
Hu, G.5
Xue, J.6
Zhu, X.7
Wang, C.-Y.8
Xue, Z.9
Fan, G.10
-
30
-
-
84961226697
-
CD82/KAI1 maintains the dormancy of long-term hematopoietic stem cells through interaction with DARC-expressing macrophages
-
Hur, J., Choi, J.-I., Lee, H., Nham, P., Kim, T.-W., Chae, C.-W., Yun, J.-Y., Kang, J.-A., Kang, J., Lee, S.E., et al. CD82/KAI1 maintains the dormancy of long-term hematopoietic stem cells through interaction with DARC-expressing macrophages. Cell Stem Cell 18 (2016), 508–521.
-
(2016)
Cell Stem Cell
, vol.18
, pp. 508-521
-
-
Hur, J.1
Choi, J.-I.2
Lee, H.3
Nham, P.4
Kim, T.-W.5
Chae, C.-W.6
Yun, J.-Y.7
Kang, J.-A.8
Kang, J.9
Lee, S.E.10
-
31
-
-
0037130961
-
A stem cell molecular signature
-
Ivanova, N.B., Dimos, J.T., Schaniel, C., Hackney, J.A., Moore, K.A., Lemischka, I.R., A stem cell molecular signature. Science 298 (2002), 601–604.
-
(2002)
Science
, vol.298
, pp. 601-604
-
-
Ivanova, N.B.1
Dimos, J.T.2
Schaniel, C.3
Hackney, J.A.4
Moore, K.A.5
Lemischka, I.R.6
-
32
-
-
0029043178
-
Establishment of functional imprinting of the H19 gene in human developing placentae
-
Jinno, Y., Ikeda, Y., Yun, K., Maw, M., Masuzaki, H., Fukuda, H., Inuzuka, K., Fujishita, A., Ohtani, Y., Okimoto, T., et al. Establishment of functional imprinting of the H19 gene in human developing placentae. Nat. Genet. 10 (1995), 318–324.
-
(1995)
Nat. Genet.
, vol.10
, pp. 318-324
-
-
Jinno, Y.1
Ikeda, Y.2
Yun, K.3
Maw, M.4
Masuzaki, H.5
Fukuda, H.6
Inuzuka, K.7
Fujishita, A.8
Ohtani, Y.9
Okimoto, T.10
-
33
-
-
67650587142
-
Prospective isolation and molecular characterization of hematopoietic stem cells with durable self-renewal potential
-
Kent, D.G., Copley, M.R., Benz, C., Wöhrer, S., Dykstra, B.J., Ma, E., Cheyne, J., Zhao, Y., Bowie, M.B., Zhao, Y., et al. Prospective isolation and molecular characterization of hematopoietic stem cells with durable self-renewal potential. Blood 113 (2009), 6342–6350.
-
(2009)
Blood
, vol.113
, pp. 6342-6350
-
-
Kent, D.G.1
Copley, M.R.2
Benz, C.3
Wöhrer, S.4
Dykstra, B.J.5
Ma, E.6
Cheyne, J.7
Zhao, Y.8
Bowie, M.B.9
Zhao, Y.10
-
34
-
-
85009062759
-
Dissociation of survival, proliferation, and state control in human hematopoietic stem cells
-
Knapp, D.J.H.F., Hammond, C.A., Miller, P.H., Rabu, G.M., Beer, P.A., Ricicova, M., Lecault, V., Da Costa, D., VanInsberghe, M., Cheung, A.M., et al. Dissociation of survival, proliferation, and state control in human hematopoietic stem cells. Stem Cell Rep. 8 (2017), 152–162.
-
(2017)
Stem Cell Rep.
, vol.8
, pp. 152-162
-
-
Knapp, D.J.H.F.1
Hammond, C.A.2
Miller, P.H.3
Rabu, G.M.4
Beer, P.A.5
Ricicova, M.6
Lecault, V.7
Da Costa, D.8
VanInsberghe, M.9
Cheung, A.M.10
-
35
-
-
85047620245
-
A novel subset of human CD33+ haematopoietic stem cells characterized at single-cell resolution
-
Knapp, D.J.H.F., Hammond, C.A., Hui, T., van Loenhout, M.T.J., Wang, F., Aghaeepour, N., Miller, P.H., Moksa, M., Rabu, G.M., Beer, P.A., et al. A novel subset of human CD33+ haematopoietic stem cells characterized at single-cell resolution. Nat. Cell Biol., 2018, 10.1038/s41556-018-0104-5.
-
(2018)
Nat. Cell Biol.
-
-
Knapp, D.J.H.F.1
Hammond, C.A.2
Hui, T.3
van Loenhout, M.T.J.4
Wang, F.5
Aghaeepour, N.6
Miller, P.H.7
Moksa, M.8
Rabu, G.M.9
Beer, P.A.10
-
36
-
-
84923362619
-
Integrative analysis of 111 reference human epigenomes
-
Kundaje, A., Meuleman, W., Ernst, J., Bilenky, M., Yen, A., Heravi-Moussavi, A., Kheradpour, P., Zhang, Z., Wang, J., Ziller, M.J., et al. Integrative analysis of 111 reference human epigenomes. Nature 518 (2015), 317–330.
-
(2015)
Nature
, vol.518
, pp. 317-330
-
-
Kundaje, A.1
Meuleman, W.2
Ernst, J.3
Bilenky, M.4
Yen, A.5
Heravi-Moussavi, A.6
Kheradpour, P.7
Zhang, Z.8
Wang, J.9
Ziller, M.J.10
-
37
-
-
84907419194
-
Immunogenetics. Chromatin state dynamics during blood formation
-
Lara-Astiaso, D., Weiner, A., Lorenzo-Vivas, E., Zaretsky, I., Jaitin, D.A., David, E., Keren-Shaul, H., Mildner, A., Winter, D., Jung, S., et al. Immunogenetics. Chromatin state dynamics during blood formation. Science 345 (2014), 943–949.
-
(2014)
Science
, vol.345
, pp. 943-949
-
-
Lara-Astiaso, D.1
Weiner, A.2
Lorenzo-Vivas, E.3
Zaretsky, I.4
Jaitin, D.A.5
David, E.6
Keren-Shaul, H.7
Mildner, A.8
Winter, D.9
Jung, S.10
-
38
-
-
84992593487
-
Complement cascade gene expression defines novel prognostic subgroups of acute myeloid leukemia
-
Laverdière, I., Boileau, M., Herold, T., Rak, J., Berdel, W.E., Wörmann, B., Hiddemann, W., Spiekermann, K., Bohlander, S.K., Eppert, K., Complement cascade gene expression defines novel prognostic subgroups of acute myeloid leukemia. Exp. Hematol. 44 (2016), 1039–1043.e10.
-
(2016)
Exp. Hematol.
, vol.44
, pp. 1039-1043.e10
-
-
Laverdière, I.1
Boileau, M.2
Herold, T.3
Rak, J.4
Berdel, W.E.5
Wörmann, B.6
Hiddemann, W.7
Spiekermann, K.8
Bohlander, S.K.9
Eppert, K.10
-
39
-
-
85003848674
-
Nucleosome density ChIP-Seq identifies distinct chromatin modification signatures associated with MNase accessibility
-
Lorzadeh, A., Bilenky, M., Hammond, C., Knapp, D.J.H.F., Li, L., Miller, P.H., Carles, A., Heravi-Moussavi, A., Gakkhar, S., Moksa, M., et al. Nucleosome density ChIP-Seq identifies distinct chromatin modification signatures associated with MNase accessibility. Cell Rep. 17 (2016), 2112–2124.
-
(2016)
Cell Rep.
, vol.17
, pp. 2112-2124
-
-
Lorzadeh, A.1
Bilenky, M.2
Hammond, C.3
Knapp, D.J.H.F.4
Li, L.5
Miller, P.H.6
Carles, A.7
Heravi-Moussavi, A.8
Gakkhar, S.9
Moksa, M.10
-
40
-
-
85027126307
-
Single-cell methylomes identify neuronal subtypes and regulatory elements in mammalian cortex
-
Luo, C., Keown, C.L., Kurihara, L., Zhou, J., He, Y., Li, J., Castanon, R., Lucero, J., Nery, J.R., Sandoval, J.P., et al. Single-cell methylomes identify neuronal subtypes and regulatory elements in mammalian cortex. Science 357 (2017), 600–604.
-
(2017)
Science
, vol.357
, pp. 600-604
-
-
Luo, C.1
Keown, C.L.2
Kurihara, L.3
Zhou, J.4
He, Y.5
Li, J.6
Castanon, R.7
Lucero, J.8
Nery, J.R.9
Sandoval, J.P.10
-
41
-
-
84874134580
-
DNA methylation of specific CpG sites in the promoter region regulates the transcription of the mouse oxytocin receptor
-
Mamrut, S., Harony, H., Sood, R., Shahar-Gold, H., Gainer, H., Shi, Y.-J., Barki-Harrington, L., Wagner, S., DNA methylation of specific CpG sites in the promoter region regulates the transcription of the mouse oxytocin receptor. PLoS One, 8, 2013, e56869.
-
(2013)
PLoS One
, vol.8
, pp. e56869
-
-
Mamrut, S.1
Harony, H.2
Sood, R.3
Shahar-Gold, H.4
Gainer, H.5
Shi, Y.-J.6
Barki-Harrington, L.7
Wagner, S.8
-
42
-
-
84866919003
-
Amplification-free whole-genome bisulfite sequencing by post-bisulfite adaptor tagging
-
Miura, F., Enomoto, Y., Dairiki, R., Ito, T., Amplification-free whole-genome bisulfite sequencing by post-bisulfite adaptor tagging. Nucleic Acids Res., 40, 2012, e136.
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. e136
-
-
Miura, F.1
Enomoto, Y.2
Dairiki, R.3
Ito, T.4
-
43
-
-
49449106856
-
Methylation status of a single CpG site in the IL6 promoter is related to IL6 messenger RNA levels and rheumatoid arthritis
-
Nile, C.J., Read, R.C., Akil, M., Duff, G.W., Wilson, A.G., Methylation status of a single CpG site in the IL6 promoter is related to IL6 messenger RNA levels and rheumatoid arthritis. Arthritis Rheum. 58 (2008), 2686–2693.
-
(2008)
Arthritis Rheum.
, vol.58
, pp. 2686-2693
-
-
Nile, C.J.1
Read, R.C.2
Akil, M.3
Duff, G.W.4
Wilson, A.G.5
-
44
-
-
79960106880
-
Isolation of single human hematopoietic stem cells capable of long-term multilineage engraftment
-
Notta, F., Doulatov, S., Laurenti, E., Poeppl, A., Jurisica, I., Dick, J.E., Isolation of single human hematopoietic stem cells capable of long-term multilineage engraftment. Science 333 (2011), 218–221.
-
(2011)
Science
, vol.333
, pp. 218-221
-
-
Notta, F.1
Doulatov, S.2
Laurenti, E.3
Poeppl, A.4
Jurisica, I.5
Dick, J.E.6
-
45
-
-
0029975134
-
In vivo self-renewal of c-Kit+ Sca-1+ Lin(low/-) hemopoietic stem cells
-
Osawa, M., Nakamura, K., Nishi, N., Takahasi, N., Tokuomoto, Y., Inoue, H., Nakauchi, H., In vivo self-renewal of c-Kit+ Sca-1+ Lin(low/-) hemopoietic stem cells. J. Immunol. 156 (1996), 3207–3214.
-
(1996)
J. Immunol.
, vol.156
, pp. 3207-3214
-
-
Osawa, M.1
Nakamura, K.2
Nishi, N.3
Takahasi, N.4
Tokuomoto, Y.5
Inoue, H.6
Nakauchi, H.7
-
46
-
-
84937201710
-
The effects of early life stress on the epigenome: From the womb to adulthood and even before
-
Provençal, N., Binder, E.B., The effects of early life stress on the epigenome: From the womb to adulthood and even before. Exp. Neurol. 268 (2015), 10–20.
-
(2015)
Exp. Neurol.
, vol.268
, pp. 10-20
-
-
Provençal, N.1
Binder, E.B.2
-
47
-
-
84959016635
-
Assessing cell-to-cell DNA methylation variability on individual long reads
-
Qu, W., Tsukahara, T., Nakamura, R., Yurino, H., Hashimoto, S., Tsuji, S., Takeda, H., Morishita, S., Guo, H., Smallwood, S.A., et al. Assessing cell-to-cell DNA methylation variability on individual long reads. Sci. Rep., 6, 2016, 21317.
-
(2016)
Sci. Rep.
, vol.6
, pp. 21317
-
-
Qu, W.1
Tsukahara, T.2
Nakamura, R.3
Yurino, H.4
Hashimoto, S.5
Tsuji, S.6
Takeda, H.7
Morishita, S.8
Guo, H.9
Smallwood, S.A.10
-
48
-
-
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
-
49
-
-
79960062301
-
TET2 inactivation results in pleiotropic hematopoietic abnormalities in mouse and is a recurrent event during human lymphomagenesis
-
Quivoron, C., Couronné L., Della Valle, V., Lopez, C.K., Plo, I., Wagner-Ballon, O., Do Cruzeiro, M., Delhommeau, F., Arnulf, B., Stern, M.-H., et al. TET2 inactivation results in pleiotropic hematopoietic abnormalities in mouse and is a recurrent event during human lymphomagenesis. Cancer Cell 20 (2011), 25–38.
-
(2011)
Cancer Cell
, vol.20
, pp. 25-38
-
-
Quivoron, C.1
Couronné, L.2
Della Valle, V.3
Lopez, C.K.4
Plo, I.5
Wagner-Ballon, O.6
Do Cruzeiro, M.7
Delhommeau, F.8
Arnulf, B.9
Stern, M.-H.10
-
50
-
-
78650584064
-
CpG methylation of half-CRE sequences creates C/EBP binding sites that activate some tissue-specific genes
-
Rishi, V., Bhattacharya, P., Chatterjee, R., Rozenberg, J., Zhao, J., Glass, K., Fitzgerald, P., Vinson, C., CpG methylation of half-CRE sequences creates C/EBP binding sites that activate some tissue-specific genes. Proc. Natl. Acad. Sci. USA 107 (2010), 20311–20316.
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 20311-20316
-
-
Rishi, V.1
Bhattacharya, P.2
Chatterjee, R.3
Rozenberg, J.4
Zhao, J.5
Glass, K.6
Fitzgerald, P.7
Vinson, C.8
-
51
-
-
84885634008
-
Platelet-biased stem cells reside at the apex of the haematopoietic stem-cell hierarchy
-
Sanjuan-Pla, A., Macaulay, I.C., Jensen, C.T., Woll, P.S., Luis, T.C., Mead, A., Moore, S., Carella, C., Matsuoka, S., Jones, T.B., et al. Platelet-biased stem cells reside at the apex of the haematopoietic stem-cell hierarchy. Nature 502 (2013), 232–236.
-
(2013)
Nature
, vol.502
, pp. 232-236
-
-
Sanjuan-Pla, A.1
Macaulay, I.C.2
Jensen, C.T.3
Woll, P.S.4
Luis, T.C.5
Mead, A.6
Moore, S.7
Carella, C.8
Matsuoka, S.9
Jones, T.B.10
-
52
-
-
85022223271
-
Tracing the origins of relapse in acute myeloid leukaemia to stem cells
-
Shlush, L.I., Mitchell, A., Heisler, L., Abelson, S., Ng, S.W.K., Trotman-Grant, A., Medeiros, J.J.F., Rao-Bhatia, A., Jaciw-Zurakowsky, I., Marke, R., et al. Tracing the origins of relapse in acute myeloid leukaemia to stem cells. Nature 547 (2017), 104–108.
-
(2017)
Nature
, vol.547
, pp. 104-108
-
-
Shlush, L.I.1
Mitchell, A.2
Heisler, L.3
Abelson, S.4
Ng, S.W.K.5
Trotman-Grant, A.6
Medeiros, J.J.F.7
Rao-Bhatia, A.8
Jaciw-Zurakowsky, I.9
Marke, R.10
-
53
-
-
84905405443
-
Single-cell genome-wide bisulfite sequencing for assessing epigenetic heterogeneity
-
Smallwood, S.A., Lee, H.J., Angermueller, C., Krueger, F., Saadeh, H., Peat, J., Andrews, S.R., Stegle, O., Reik, W., Kelsey, G., Single-cell genome-wide bisulfite sequencing for assessing epigenetic heterogeneity. Nat. Methods 11 (2014), 817–820.
-
(2014)
Nat. Methods
, vol.11
, pp. 817-820
-
-
Smallwood, S.A.1
Lee, H.J.2
Angermueller, C.3
Krueger, F.4
Saadeh, H.5
Peat, J.6
Andrews, S.R.7
Stegle, O.8
Reik, W.9
Kelsey, G.10
-
54
-
-
23744458086
-
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
-
Siepel, A., Bejerano, G., Pedersen, J.S., Hinrichs, A.S., Hou, M., Rosenbloom, K., Clawson, H., Spieth, J., Hillier, L.W., Richards, S., et al. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res. 15 (2005), 1034–1050.
-
(2005)
Genome Res.
, vol.15
, pp. 1034-1050
-
-
Siepel, A.1
Bejerano, G.2
Pedersen, J.S.3
Hinrichs, A.S.4
Hou, M.5
Rosenbloom, K.6
Clawson, H.7
Spieth, J.8
Hillier, L.W.9
Richards, S.10
-
55
-
-
84355163093
-
DNA-binding factors shape the mouse methylome at distal regulatory regions
-
Stadler, M.B., Murr, R., Burger, L., Ivanek, R., Lienert, F., Schöler, A., Wirbelauer, C., Oakeley, E.J., Gaidatzis, D., Tiwari, V.K., et al. DNA-binding factors shape the mouse methylome at distal regulatory regions. Nature 480 (2011), 490–495.
-
(2011)
Nature
, vol.480
, pp. 490-495
-
-
Stadler, M.B.1
Murr, R.2
Burger, L.3
Ivanek, R.4
Lienert, F.5
Schöler, A.6
Wirbelauer, C.7
Oakeley, E.J.8
Gaidatzis, D.9
Tiwari, V.K.10
-
56
-
-
85017454208
-
Single CpG site methylation controls estrogen receptor gene transcription and correlates with hormone therapy resistance
-
Tsuboi, K., Nagatomo, T., Gohno, T., Higuchi, T., Sasaki, S., Fujiki, N., Kurosumi, M., Takei, H., Yamaguchi, Y., Niwa, T., et al. Single CpG site methylation controls estrogen receptor gene transcription and correlates with hormone therapy resistance. J. Steroid Biochem. Mol. Biol. 171 (2017), 209–217.
-
(2017)
J. Steroid Biochem. Mol. Biol.
, vol.171
, pp. 209-217
-
-
Tsuboi, K.1
Nagatomo, T.2
Gohno, T.3
Higuchi, T.4
Sasaki, S.5
Fujiki, N.6
Kurosumi, M.7
Takei, H.8
Yamaguchi, Y.9
Niwa, T.10
-
57
-
-
84940446838
-
Combined single-cell functional and gene expression analysis resolves heterogeneity within stem cell populations
-
Wilson, N.K., Kent, D.G., Buettner, F., Shehata, M., Macaulay, I.C., Calero-Nieto, F.J., Sánchez Castillo, M., Oedekoven, C.A., Diamanti, E., Schulte, R., et al. Combined single-cell functional and gene expression analysis resolves heterogeneity within stem cell populations. Cell Stem Cell 16 (2015), 712–724.
-
(2015)
Cell Stem Cell
, vol.16
, pp. 712-724
-
-
Wilson, N.K.1
Kent, D.G.2
Buettner, F.3
Shehata, M.4
Macaulay, I.C.5
Calero-Nieto, F.J.6
Sánchez Castillo, M.7
Oedekoven, C.A.8
Diamanti, E.9
Schulte, R.10
-
58
-
-
84857331867
-
Base-resolution analyses of sequence and parent-of-origin dependent DNA methylation in the mouse genome
-
Xie, W., Barr, C.L., Kim, A., Yue, F., Lee, A.Y., Eubanks, J., Dempster, E.L., Ren, B., Base-resolution analyses of sequence and parent-of-origin dependent DNA methylation in the mouse genome. Cell 148 (2012), 816–831.
-
(2012)
Cell
, vol.148
, pp. 816-831
-
-
Xie, W.1
Barr, C.L.2
Kim, A.3
Yue, F.4
Lee, A.Y.5
Eubanks, J.6
Dempster, E.L.7
Ren, B.8
-
59
-
-
84883428326
-
Clonal analysis unveils self-renewing lineage-restricted progenitors generated directly from hematopoietic stem cells
-
Yamamoto, R., Morita, Y., Ooehara, J., Hamanaka, S., Onodera, M., Rudolph, K.L., Ema, H., Nakauchi, H., Clonal analysis unveils self-renewing lineage-restricted progenitors generated directly from hematopoietic stem cells. Cell 154 (2013), 1112–1126.
-
(2013)
Cell
, vol.154
, pp. 1112-1126
-
-
Yamamoto, R.1
Morita, Y.2
Ooehara, J.3
Hamanaka, S.4
Onodera, M.5
Rudolph, K.L.6
Ema, H.7
Nakauchi, H.8
-
60
-
-
85018754019
-
Impact of cytosine methylation on DNA binding specificities of human transcription factors
-
Yin, Y., Morgunova, E., Jolma, A., Kaasinen, E., Sahu, B., Khund-Sayeed, S., Das, P.K., Kivioja, T., Dave, K., Zhong, F., et al. Impact of cytosine methylation on DNA binding specificities of human transcription factors. Science, 356, 2017, eaaj2239.
-
(2017)
Science
, vol.356
, pp. eaaj2239
-
-
Yin, Y.1
Morgunova, E.2
Jolma, A.3
Kaasinen, E.4
Sahu, B.5
Khund-Sayeed, S.6
Das, P.K.7
Kivioja, T.8
Dave, K.9
Zhong, F.10
-
61
-
-
84995806677
-
Epigenetic memory underlies cell-autonomous heterogeneous behavior of hematopoietic stem cells
-
Yu, V.W.C., Yusuf, R.Z., Oki, T., Wu, J., Saez, B., Wang, X., Cook, C., Baryawno, N., Ziller, M.J., Lee, E., et al. Epigenetic memory underlies cell-autonomous heterogeneous behavior of hematopoietic stem cells. Cell 167 (2016), 1310–1322.e17.
-
(2016)
Cell
, vol.167
, pp. 1310-1322.e17
-
-
Yu, V.W.C.1
Yusuf, R.Z.2
Oki, T.3
Wu, J.4
Saez, B.5
Wang, X.6
Cook, C.7
Baryawno, N.8
Ziller, M.J.9
Lee, E.10
-
62
-
-
84939205466
-
Predicting genome-wide DNA methylation using methylation marks, genomic position, and DNA regulatory elements
-
Zhang, W., Spector, T.D., Deloukas, P., Bell, J.T., Engelhardt, B.E., Predicting genome-wide DNA methylation using methylation marks, genomic position, and DNA regulatory elements. Genome Biol., 16, 2015, 14.
-
(2015)
Genome Biol.
, vol.16
, pp. 14
-
-
Zhang, W.1
Spector, T.D.2
Deloukas, P.3
Bell, J.T.4
Engelhardt, B.E.5
-
63
-
-
85019854510
-
DNA methylation of METTL7A gene body regulates its transcriptional level in thyroid cancer
-
Zhou, S., Shen, Y., Zheng, M., Wang, L., Che, R., Hu, W., Li, P., Zhou, S., Shen, Y., Zheng, M., et al. DNA methylation of METTL7A gene body regulates its transcriptional level in thyroid cancer. Oncotarget 8 (2017), 34652–34660.
-
(2017)
Oncotarget
, vol.8
, pp. 34652-34660
-
-
Zhou, S.1
Shen, Y.2
Zheng, M.3
Wang, L.4
Che, R.5
Hu, W.6
Li, P.7
Zhou, S.8
Shen, Y.9
Zheng, M.10
|