-
1
-
-
80051505603
-
Hierarchical differentiation of myeloid progenitors is encoded in the transcription factor network
-
Krumsiek, J., Marr, C., Schroeder, T. & Theis, F.J. Hierarchical differentiation of myeloid progenitors is encoded in the transcription factor network. PLoS One 6, e22649 (2011).
-
(2011)
PLoS One
, vol.6
, pp. e22649
-
-
Krumsiek, J.1
Marr, C.2
Schroeder, T.3
Theis, F.J.4
-
2
-
-
39349096526
-
Hematopoiesis: An evolving paradigm for stem cell biology
-
Orkin, S.H. & Zon, L.I. Hematopoiesis: an evolving paradigm for stem cell biology. Cell 132, 631-644 (2008).
-
(2008)
Cell
, vol.132
, pp. 631-644
-
-
Orkin, S.H.1
Zon, L.I.2
-
3
-
-
77956607725
-
A mutant allele of the Swi/Snf member BAF250a determines the pool size of fetal liver hemopoietic stem cell populations
-
Krosl, J. et al. A mutant allele of the Swi/Snf member BAF250a determines the pool size of fetal liver hemopoietic stem cell populations. Blood 116, 1678-1684 (2010).
-
(2010)
Blood
, vol.116
, pp. 1678-1684
-
-
Krosl, J.1
-
4
-
-
35348875999
-
Transcriptional control of granulocyte and monocyte development
-
Friedman, A.D. Transcriptional control of granulocyte and monocyte development. Oncogene 26, 6816-6828 (2007).
-
(2007)
Oncogene
, vol.26
, pp. 6816-6828
-
-
Friedman, A.D.1
-
5
-
-
41649084825
-
The chromatin-remodeling enzyme BRG1 plays an essential role in primitive erythropoiesis and vascular development
-
Griffin, C.T., Brennan, J. & Magnuson, T. The chromatin-remodeling enzyme BRG1 plays an essential role in primitive erythropoiesis and vascular development. Development 135, 493-500 (2008).
-
(2008)
Development
, vol.135
, pp. 493-500
-
-
Griffin, C.T.1
Brennan, J.2
Magnuson, T.3
-
6
-
-
84893341565
-
A network of epigenetic regulators guides developmental haematopoiesis in vivo
-
Huang, H.T. et al. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Nat. Cell Biol. 15, 1516-1525 (2013).
-
(2013)
Nat. Cell Biol.
, vol.15
, pp. 1516-1525
-
-
Huang, H.T.1
-
7
-
-
84925546982
-
Epigenetic control of myeloid cell differentiation, identity and function
-
Álvarez-Errico, D., Vento-Tormo, R., Sieweke, M. & Ballestar, E. Epigenetic control of myeloid cell differentiation, identity and function. Nat. Rev. Immunol. 15, 7-17 (2015).
-
(2015)
Nat. Rev. Immunol.
, vol.15
, pp. 7-17
-
-
Álvarez-Errico, D.1
Vento-Tormo, R.2
Sieweke, M.3
Ballestar, E.4
-
8
-
-
79959674418
-
Epigenetics of haematopoietic cell development
-
Cedar, H. & Bergman, Y. Epigenetics of haematopoietic cell development. Nat. Rev. Immunol. 11, 478-488 (2011).
-
(2011)
Nat. Rev. Immunol.
, vol.11
, pp. 478-488
-
-
Cedar, H.1
Bergman, Y.2
-
9
-
-
70249121045
-
The logic of chromatin architecture and remodelling at promoters
-
Cairns, B.R. The logic of chromatin architecture and remodelling at promoters. Nature 461, 193-198 (2009).
-
(2009)
Nature
, vol.461
, pp. 193-198
-
-
Cairns, B.R.1
-
10
-
-
33646869229
-
Chromatin remodelling in mammalian differentiation: Lessons from ATP-dependent remodellers
-
de la Serna, I.L., Ohkawa, Y. & Imbalzano, A.N. Chromatin remodelling in mammalian differentiation: lessons from ATP-dependent remodellers. Nat. Rev. Genet. 7, 461-473 (2006).
-
(2006)
Nat. Rev. Genet.
, vol.7
, pp. 461-473
-
-
De La-Serna, I.L.1
Ohkawa, Y.2
Imbalzano, A.N.3
-
11
-
-
84879312591
-
Swi/Snf chromatin remodeling/tumor suppressor complex establishes nucleosome occupancy at target promoters
-
Tolstorukov, M.Y. et al. Swi/Snf chromatin remodeling/tumor suppressor complex establishes nucleosome occupancy at target promoters. Proc. Natl. Acad. Sci. USA 110, 10165-10170 (2013).
-
(2013)
Proc. Natl. Acad. Sci. USA
, vol.110
, pp. 10165-10170
-
-
Tolstorukov, M.Y.1
-
12
-
-
79959653996
-
SWI/SNF nucleosome remodellers and cancer
-
Wilson, B.G. & Roberts, C.W. SWI/SNF nucleosome remodellers and cancer. Nat. Rev. Cancer 11, 481-492 (2011).
-
(2011)
Nat. Rev. Cancer
, vol.11
, pp. 481-492
-
-
Wilson, B.G.1
Roberts, C.W.2
-
13
-
-
84897502156
-
Essential role of BRG, the ATPase subunit of BAF chromatin remodeling complexes, in leukemia maintenance
-
Buscarlet, M. et al. Essential role of BRG, the ATPase subunit of BAF chromatin remodeling complexes, in leukemia maintenance. Blood 123, 1720-1728 (2014).
-
(2014)
Blood
, vol.123
, pp. 1720-1728
-
-
Buscarlet, M.1
-
14
-
-
84878242024
-
Identification of transcriptional regulators in the mouse immune system
-
Jojic, V. et al. Identification of transcriptional regulators in the mouse immune system. Nat. Immunol. 14, 633-643 (2013).
-
(2013)
Nat. Immunol.
, vol.14
, pp. 633-643
-
-
Jojic, V.1
-
15
-
-
84925946317
-
Differential association of chromatin proteins identifies BAF60a/SMARCD1 as a regulator of embryonic stem cell differentiation
-
Alajem, A. et al. Differential association of chromatin proteins identifies BAF60a/SMARCD1 as a regulator of embryonic stem cell differentiation. Cell Rep. 10, 2019-2031 (2015).
-
(2015)
Cell Rep.
, vol.10
, pp. 2019-2031
-
-
Alajem, A.1
-
16
-
-
8544270889
-
Baf60c is essential for function of BAF chromatin remodelling complexes in heart development
-
Lickert, H. et al. Baf60c is essential for function of BAF chromatin remodelling complexes in heart development. Nature 432, 107-112 (2004).
-
(2004)
Nature
, vol.432
, pp. 107-112
-
-
Lickert, H.1
-
17
-
-
34249067923
-
The zebrafish lysozyme C promoter drives myeloid-specific expression in transgenic fish
-
Hall, C., Flores, M.V., Storm, T., Crosier, K. & Crosier, P. The zebrafish lysozyme C promoter drives myeloid-specific expression in transgenic fish. BMC Dev. Biol. 7, 42 (2007).
-
(2007)
BMC Dev. Biol.
, vol.7
, pp. 42
-
-
Hall, C.1
Flores, M.V.2
Storm, T.3
Crosier, K.4
Crosier, P.5
-
18
-
-
63849258583
-
Zebrafish granulocyte colony-stimulating factor receptor signaling promotes myelopoiesis and myeloid cell migration
-
Liongue, C., Hall, C.J., O'Connell, B.A., Crosier, P. & Ward, A.C. Zebrafish granulocyte colony-stimulating factor receptor signaling promotes myelopoiesis and myeloid cell migration. Blood 113, 2535-2546 (2009).
-
(2009)
Blood
, vol.113
, pp. 2535-2546
-
-
Liongue, C.1
Hall, C.J.2
O'Connell, B.A.3
Crosier, P.4
Ward, A.C.5
-
19
-
-
33845494471
-
A transgenic zebrafish model of neutrophilic inflammation
-
Renshaw, S.A. et al. A transgenic zebrafish model of neutrophilic inflammation. Blood 108, 3976-3978 (2006).
-
(2006)
Blood
, vol.108
, pp. 3976-3978
-
-
Renshaw, S.A.1
-
20
-
-
80355132656
-
Identification and analysis of mouse erythroid progenitors using the CD71/TER119 flow-cytometric assay
-
Koulnis, M. et al. Identification and analysis of mouse erythroid progenitors using the CD71/TER119 flow-cytometric assay. J. Vis. Exp. 5, 2809 (2011).
-
(2011)
J. Vis. Exp.
, vol.5
, pp. 2809
-
-
Koulnis, M.1
-
21
-
-
67649669255
-
A unifying model for the selective regulation of inducible transcription by CpG islands and nucleosome remodeling
-
Ramirez-Carrozzi, V.R. et al. A unifying model for the selective regulation of inducible transcription by CpG islands and nucleosome remodeling. Cell 138, 114-128 (2009).
-
(2009)
Cell
, vol.138
, pp. 114-128
-
-
Ramirez-Carrozzi, V.R.1
-
22
-
-
84896724439
-
Enhancement of differentiation induction and upregulation of CCAAT/enhancer-binding proteins and PU.1 in NB4 cells treated with combination of ATRA and valproic acid
-
Iriyama, N. et al. Enhancement of differentiation induction and upregulation of CCAAT/enhancer-binding proteins and PU.1 in NB4 cells treated with combination of ATRA and valproic acid. Int. J. Oncol. 44, 865-873 (2014).
-
(2014)
Int. J. Oncol.
, vol.44
, pp. 865-873
-
-
Iriyama, N.1
-
23
-
-
34547515063
-
Expression of bactericidal/permeability-increasing protein requires C/EBP∈
-
Tanaka, M., Gombart, A.F., Koeffler, H.P. & Shiohara, M. Expression of bactericidal/permeability-increasing protein requires C/EBP∈. Int. J. Hematol. 85, 304-311 (2007).
-
(2007)
Int. J. Hematol.
, vol.85
, pp. 304-311
-
-
Tanaka, M.1
Gombart, A.F.2
Koeffler, H.P.3
Shiohara, M.4
-
24
-
-
0033135842
-
CCAAT/enhancer binding protein ∈ is critical for effective neutrophil-mediated response to inflammatory challenge
-
Lekstrom-Himes, J. & Xanthopoulos, K.G. CCAAT/enhancer binding protein ∈ is critical for effective neutrophil-mediated response to inflammatory challenge. Blood 93, 3096-3105 (1999).
-
(1999)
Blood
, vol.93
, pp. 3096-3105
-
-
Lekstrom-Himes, J.1
Xanthopoulos, K.G.2
-
25
-
-
0033532546
-
Neutrophil-specific granule deficiency results from a novel mutation with loss of function of the transcription factor CCAAT/enhancer binding protein ∈
-
Lekstrom-Himes, J.A., Dorman, S.E., Kopar, P., Holland, S.M. & Gallin, J.I. Neutrophil-specific granule deficiency results from a novel mutation with loss of function of the transcription factor CCAAT/enhancer binding protein ∈. J. Exp. Med. 189, 1847-1852 (1999).
-
(1999)
J. Exp. Med.
, vol.189
, pp. 1847-1852
-
-
Lekstrom-Himes, J.A.1
Dorman, S.E.2
Kopar, P.3
Holland, S.M.4
Gallin, J.I.5
-
26
-
-
84864016886
-
Maturity-dependent fractionation of neutrophil progenitors: A new method to examine in vivo expression profiles of differentiation-regulating genes
-
Hu, H. et al. Maturity-dependent fractionation of neutrophil progenitors: a new method to examine in vivo expression profiles of differentiation-regulating genes. Exp. Hematol. 40, 675-681 (2012).
-
(2012)
Exp. Hematol.
, vol.40
, pp. 675-681
-
-
Hu, H.1
-
27
-
-
80053140931
-
A role for snf2-related nucleosome-spacing enzymes in genome-wide nucleosome organization
-
Gkikopoulos, T. et al. A role for Snf2-related nucleosome-spacing enzymes in genome-wide nucleosome organization. Science 333, 1758-1760 (2011).
-
(2011)
Science
, vol.333
, pp. 1758-1760
-
-
Gkikopoulos, T.1
-
28
-
-
84932158777
-
A novel in-frame deletion in the leucine zipper domain of C/EBP∈ leads to neutrophil-specific granule deficiency
-
Wada, T. et al. A novel in-frame deletion in the leucine zipper domain of C/EBP∈ leads to neutrophil-specific granule deficiency. J. Immunol. 195, 80-86 (2015).
-
(2015)
J. Immunol.
, vol.195
, pp. 80-86
-
-
Wada, T.1
-
29
-
-
0019970508
-
Human neutrophil-specific granule deficiency: A model to assess the role of neutrophil-specific granules in the evolution of the inflammatory response
-
Gallin, J.I. et al. Human neutrophil-specific granule deficiency: a model to assess the role of neutrophil-specific granules in the evolution of the inflammatory response. Blood 59, 1317-1329 (1982).
-
(1982)
Blood
, vol.59
, pp. 1317-1329
-
-
Gallin, J.I.1
-
30
-
-
0018897903
-
Lactoferrin deficiency as a consequence of a lack of specific granules in neutrophils from a patient with recurrent infections. Detection by immunoperoxidase staining for lactoferrin and cytochemical electron microscopy
-
Breton-Gorius, J., Mason, D.Y., Buriot, D., Vilde, J.L. & Griscelli, C. Lactoferrin deficiency as a consequence of a lack of specific granules in neutrophils from a patient with recurrent infections. Detection by immunoperoxidase staining for lactoferrin and cytochemical electron microscopy. Am. J. Pathol. 99, 413-428 (1980).
-
(1980)
Am. J. Pathol.
, vol.99
, pp. 413-428
-
-
Breton-Gorius, J.1
Mason, D.Y.2
Buriot, D.3
Vilde, J.L.4
Griscelli, C.5
-
31
-
-
0018330454
-
Abnormal neutrophil maturation in a neutrophil defect with morphologic abnormality and impaired function
-
Komiyama, A., Morosawa, H., Nakahata, T., Miyagawa, Y. & Akabane, T. Abnormal neutrophil maturation in a neutrophil defect with morphologic abnormality and impaired function. J. Pediatr. 94, 19-25 (1979).
-
(1979)
J. Pediatr.
, vol.94
, pp. 19-25
-
-
Komiyama, A.1
Morosawa, H.2
Nakahata, T.3
Miyagawa, Y.4
Akabane, T.5
-
32
-
-
34248350431
-
Growth factor independence-1 (Gfi-1) plays a role in mediating specific granule deficiency (SGD) in a patient lacking a gene-inactivating mutation in the C/EBP∈ gene
-
Khanna-Gupta, A. et al. Growth factor independence-1 (Gfi-1) plays a role in mediating specific granule deficiency (SGD) in a patient lacking a gene-inactivating mutation in the C/EBP∈ gene. Blood 109, 4181-4190 (2007).
-
(2007)
Blood
, vol.109
, pp. 4181-4190
-
-
Khanna-Gupta, A.1
-
33
-
-
0030609033
-
C/EBP-∈: Chromosomal mapping and mutational analysis of the gene in leukemia and preleukemia
-
Koike, M. et al. C/EBP-∈: chromosomal mapping and mutational analysis of the gene in leukemia and preleukemia. Leuk. Res. 21, 833-839 (1997).
-
(1997)
Leuk. Res.
, vol.21
, pp. 833-839
-
-
Koike, M.1
-
35
-
-
0030659176
-
Impaired granulopoiesis, myelodysplasia, and early lethality in CCAAT/enhancer binding protein ∈-deficient mice
-
Yamanaka, R. et al. Impaired granulopoiesis, myelodysplasia, and early lethality in CCAAT/enhancer binding protein ∈-deficient mice. Proc. Natl. Acad. Sci. USA 94, 13187-13192 (1997).
-
(1997)
Proc. Natl. Acad. Sci. USA
, vol.94
, pp. 13187-13192
-
-
Yamanaka, R.1
-
36
-
-
84890717859
-
Role of SWI/SNF in acute leukemia maintenance and enhancer-mediated myc regulation
-
Shi, J. et al. Role of SWI/SNF in acute leukemia maintenance and enhancer-mediated Myc regulation. Genes Dev. 27, 2648-2662 (2013).
-
(2013)
Genes Dev.
, vol.27
, pp. 2648-2662
-
-
Shi, J.1
-
37
-
-
84957108985
-
SWI/SNF subunits SMARCA4, SMARCD2 and DPF2 collaborate in MLL-rearranged leukaemia maintenance
-
Cruickshank, V.A. et al. SWI/SNF subunits SMARCA4, SMARCD2 and DPF2 collaborate in MLL-rearranged leukaemia maintenance. PLoS One 10, e0142806 (2015).
-
(2015)
PLoS One
, vol.10
, pp. e0142806
-
-
Cruickshank, V.A.1
-
38
-
-
84965079020
-
Comprehensive mutational analysis of primary and relapse acute promyelocytic leukemia
-
Madan, V. et al. Comprehensive mutational analysis of primary and relapse acute promyelocytic leukemia. Leukemia 30, 1672-1681 (2016).
-
(2016)
Leukemia
, vol.30
, pp. 1672-1681
-
-
Madan, V.1
-
39
-
-
85016940984
-
SMARCD2 subunit of the SWI/SNF chromatin-remodeling complex mediates granulopoiesis through a CEBP∈- dependent mechanism
-
Priam, P. et al. SMARCD2 subunit of the SWI/SNF chromatin-remodeling complex mediates granulopoiesis through a CEBP∈- dependent mechanism. Nat. Genet. http://dx.doi.org/10.1038/ng.3812 (2017).
-
(2017)
Nat. Genet.
-
-
Priam, P.1
-
40
-
-
30944466473
-
Intractable diarrhoea of infancy caused by neutrophil specific granule deficiency and cured by stem cell transplantation
-
Wynn, R.F. et al. Intractable diarrhoea of infancy caused by neutrophil specific granule deficiency and cured by stem cell transplantation. Gut 55, 292-293 (2006).
-
(2006)
Gut
, vol.55
, pp. 292-293
-
-
Wynn, R.F.1
-
41
-
-
84877614089
-
Loss-of-function mutations in the IL-21 receptor gene cause a primary immunodeficiency syndrome
-
Kotlarz, D. et al. Loss-of-function mutations in the IL-21 receptor gene cause a primary immunodeficiency syndrome. J. Exp. Med. 210, 433-443 (2013).
-
(2013)
J. Exp. Med.
, vol.210
, pp. 433-443
-
-
Kotlarz, D.1
-
42
-
-
70949087383
-
Inflammatory bowel disease and mutations affecting the interleukin-10 receptor
-
Glocker, E.O. et al. Inflammatory bowel disease and mutations affecting the interleukin-10 receptor. N. Engl. J. Med. 361, 2033-2045 (2009).
-
(2009)
N. Engl. J. Med.
, vol.361
, pp. 2033-2045
-
-
Glocker, E.O.1
-
43
-
-
33846109356
-
A novel human primary immunodeficiency syndrome caused by deficiency of the endosomal adaptor protein p14
-
Bohn, G. et al. A novel human primary immunodeficiency syndrome caused by deficiency of the endosomal adaptor protein p14. Nat. Med. 13, 38-45 (2007).
-
(2007)
Nat. Med.
, vol.13
, pp. 38-45
-
-
Bohn, G.1
-
44
-
-
18344392451
-
Lipoid proteinosis maps to 1q21 and is caused by mutations in the extracellular matrix protein 1 gene (ECM1)
-
Hamada, T. et al. Lipoid proteinosis maps to 1q21 and is caused by mutations in the extracellular matrix protein 1 gene (ECM1). Hum. Mol. Genet. 11, 833-840 (2002).
-
(2002)
Hum. Mol. Genet.
, vol.11
, pp. 833-840
-
-
Hamada, T.1
-
45
-
-
77951939888
-
Microindel detection in short-read sequence data
-
Krawitz, P. et al. Microindel detection in short-read sequence data. Bioinformatics 26, 722-729 (2010).
-
(2010)
Bioinformatics
, vol.26
, pp. 722-729
-
-
Krawitz, P.1
-
46
-
-
68549104404
-
The sequence Alignment/Map format and SAMtools
-
Li, H. et al. The Sequence Alignment/Map format and SAMtools. Bioinformatics 25, 2078-2079 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
-
47
-
-
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, 841-842 (2010).
-
(2010)
Bioinformatics
, vol.26
, pp. 841-842
-
-
Quinlan, A.R.1
Hall, I.M.2
-
48
-
-
84982253941
-
Analysis of protein-coding genetic variation in 60,706 humans
-
Lek, M. et al. Analysis of protein-coding genetic variation in 60,706 humans. Nature 536, 285-291 (2016).
-
(2016)
Nature
, vol.536
, pp. 285-291
-
-
Lek, M.1
-
49
-
-
79251537766
-
Mpeg1 promoter transgenes direct macrophage-lineage expression in zebrafish
-
Ellett, F., Pase, L., Hayman, J.W., Andrianopoulos, A. & Lieschke, G.J. mpeg1 promoter transgenes direct macrophage-lineage expression in zebrafish. Blood 117, e49-e56 (2011).
-
(2011)
Blood
, vol.117
, pp. e49-e56
-
-
Ellett, F.1
Pase, L.2
Hayman, J.W.3
Andrianopoulos, A.4
Lieschke, G.J.5
-
50
-
-
28444462501
-
Analysis of thrombocyte development in CD41-GFP transgenic zebrafish
-
Lin, H.F. et al. Analysis of thrombocyte development in CD41-GFP transgenic zebrafish. Blood 106, 3803-3810 (2005).
-
(2005)
Blood
, vol.106
, pp. 3803-3810
-
-
Lin, H.F.1
-
51
-
-
84902141229
-
Efficient mutagenesis by cas9 protein-mediated oligonucleotide insertion and large-scale assessment of single-guide RNAs
-
Gagnon, J.A. et al. Efficient mutagenesis by Cas9 protein-mediated oligonucleotide insertion and large-scale assessment of single-guide RNAs. PLoS One 9, e98186 (2014).
-
(2014)
PLoS One
, vol.9
, pp. e98186
-
-
Gagnon, J.A.1
-
52
-
-
36448992246
-
Method for isolation of PCR-ready genomic DNA from zebrafish tissues
-
612, 614
-
Meeker, N.D., Hutchinson, S.A., Ho, L. & Trede, N.S. Method for isolation of PCR-ready genomic DNA from zebrafish tissues. Biotechniques 43, 610, 612, 614 (2007).
-
(2007)
Biotechniques
, vol.43
, pp. 610
-
-
Meeker, N.D.1
Hutchinson, S.A.2
Ho, L.3
Trede, N.S.4
-
53
-
-
84907573408
-
CRISPRseek: A bioconductor package to identify target-specific guide RNAs for CRISPR-cas9 genome-editing systems
-
Zhu, L.J., Holmes, B.R., Aronin, N. & Brodsky, M.H. CRISPRseek: a Bioconductor package to identify target-specific guide RNAs for CRISPR-Cas9 genome-editing systems. PLoS One 9, e108424 (2014).
-
(2014)
PLoS One
, vol.9
, pp. e108424
-
-
Zhu, L.J.1
Holmes, B.R.2
Aronin, N.3
Brodsky, M.H.4
-
54
-
-
84887101406
-
Smart-seq2 for sensitive full-length transcriptome profiling in single cells
-
Picelli, S. et al. Smart-seq2 for sensitive full-length transcriptome profiling in single cells. Nat. Methods 10, 1096-1098 (2013).
-
(2013)
Nat. Methods
, vol.10
, pp. 1096-1098
-
-
Picelli, S.1
-
55
-
-
84893242996
-
RNA-seq differential expression studies: More sequence or more replication?
-
Liu, Y., Zhou, J. & White, K.P. RNA-seq differential expression studies: more sequence or more replication? Bioinformatics 30, 301-304 (2014).
-
(2014)
Bioinformatics
, vol.30
, pp. 301-304
-
-
Liu, Y.1
Zhou, J.2
White, K.P.3
-
56
-
-
84885997727
-
NextGenMap: Fast and accurate read mapping in highly polymorphic genomes
-
Sedlazeck, F.J., Rescheneder, P. & von Haeseler, A. NextGenMap: fast and accurate read mapping in highly polymorphic genomes. Bioinformatics 29, 2790-2791 (2013).
-
(2013)
Bioinformatics
, vol.29
, pp. 2790-2791
-
-
Sedlazeck, F.J.1
Rescheneder, P.2
Von Haeseler, A.3
-
57
-
-
84897397058
-
Feature counts: An efficient general purpose program for assigning sequence reads to genomic features
-
Liao, Y., Smyth, G.K. & Shi, W. feature Counts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics 30, 923-930 (2014).
-
(2014)
Bioinformatics
, vol.30
, pp. 923-930
-
-
Liao, Y.1
Smyth, G.K.2
Shi, W.3
-
58
-
-
84882714530
-
Data-based filtering for replicated high-throughput transcriptome sequencing experiments
-
Rau, A., Gallopin, M., Celeux, G. & Jaffrezic, F. Data-based filtering for replicated high-throughput transcriptome sequencing experiments. Bioinformatics 29, 2146-2152 (2013).
-
(2013)
Bioinformatics
, vol.29
, pp. 2146-2152
-
-
Rau, A.1
Gallopin, M.2
Celeux, G.3
Jaffrezic, F.4
-
59
-
-
84924629414
-
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
-
Love, M.I., Huber, W. & Anders, S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 15, 550 (2014).
-
(2014)
Genome Biol.
, vol.15
, pp. 550
-
-
Love, M.I.1
Huber, W.2
Anders, S.3
-
60
-
-
80053388216
-
Whole-genome chromatin profiling from limited numbers of cells using nano-ChIP-seq
-
Adli, M. & Bernstein, B.E. Whole-genome chromatin profiling from limited numbers of cells using nano-ChIP-seq. Nat. Protoc. 6, 1656-1668 (2011).
-
(2011)
Nat. Protoc.
, vol.6
, pp. 1656-1668
-
-
Adli, M.1
Bernstein, B.E.2
-
61
-
-
83555164884
-
Chromatin-associated RNA interference components contribute to transcriptional regulation in drosophila
-
Cernilogar, F.M. et al. Chromatin-associated RNA interference components contribute to transcriptional regulation in Drosophila. Nature 480, 391-395 (2011).
-
(2011)
Nature
, vol.480
, pp. 391-395
-
-
Cernilogar, F.M.1
-
62
-
-
44949138461
-
A rapid micro chromatin immunoprecipitation assay (microChIP)
-
Dahl, J.A. & Collas, P. A rapid micro chromatin immunoprecipitation assay (microChIP). Nat. Protoc. 3, 1032-1045 (2008).
-
(2008)
Nat. Protoc.
, vol.3
, pp. 1032-1045
-
-
Dahl, J.A.1
Collas, P.2
-
63
-
-
77951920690
-
C-myc regulates transcriptional pause release
-
Rahl, P.B. et al. c-Myc regulates transcriptional pause release. Cell 141, 432-445 (2010).
-
(2010)
Cell
, vol.141
, pp. 432-445
-
-
Rahl, P.B.1
-
64
-
-
84949212255
-
ATAC-seq: A method for assaying chromatin accessibility genome-wide
-
Buenrostro, J.D., Wu, B., Chang, H.Y. & Greenleaf, W.J. ATAC-seq: a method for assaying chromatin accessibility genome-wide. Curr. Protoc. Mol. Biol. 109, 21.29.1-21.29.9 (2015).
-
(2015)
Curr. Protoc. Mol. Biol.
, vol.109
, pp. 1-9
-
-
Buenrostro, J.D.1
Wu, B.2
Chang, H.Y.3
Greenleaf, W.J.4
-
65
-
-
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, 1754-1760 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
66
-
-
84865760395
-
GENCODE: The reference human genome annotation for the ENCODE project
-
Harrow, J. et al. GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res. 22, 1760-1774 (2012).
-
(2012)
Genome Res.
, vol.22
, pp. 1760-1774
-
-
Harrow, J.1
-
67
-
-
84883368195
-
Software for computing and annotating genomic ranges
-
Lawrence, M. et al. Software for computing and annotating genomic ranges. PLoS Comput. Biol. 9, e1003118 (2013).
-
(2013)
PLoS Comput. Biol.
, vol.9
, pp. e1003118
-
-
Lawrence, M.1
-
68
-
-
0242490780
-
Cytoscape: A software environment for integrated models of biomolecular interaction networks
-
Shannon, P. et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 13, 2498-2504 (2003).
-
(2003)
Genome Res.
, vol.13
, pp. 2498-2504
-
-
Shannon, P.1
-
69
-
-
84891753483
-
The reactome pathway knowledgebase
-
Croft, D. et al. The Reactome pathway knowledgebase. Nucleic Acids Res. 42, D472-D477 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. D472-D477
-
-
Croft, D.1
-
70
-
-
84871602426
-
Annotating cancer variants and anti-cancer therapeutics in reactome
-
Milacic, M. et al. Annotating cancer variants and anti-cancer therapeutics in Reactome. Cancers (Basel) 4, 1180-1211 (2012).
-
(2012)
Cancers (Basel)
, vol.4
, pp. 1180-1211
-
-
Milacic, M.1
-
71
-
-
33745012299
-
Modularity and community structure in networks
-
Newman, M.E. Modularity and community structure in networks. Proc. Natl. Acad. Sci. USA 103, 8577-8582 (2006).
-
(2006)
Proc. Natl. Acad. Sci. USA
, vol.103
, pp. 8577-8582
-
-
Newman, M.E.1
|