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Items: 1 to 20 of 102

1.

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.

FANTOM Consortium, Suzuki H, Forrest AR, van Nimwegen E, Daub CO, Balwierz PJ, Irvine KM, Lassmann T, Ravasi T, Hasegawa Y, de Hoon MJ, Katayama S, Schroder K, Carninci P, Tomaru Y, Kanamori-Katayama M, Kubosaki A, Akalin A, Ando Y, Arner E, Asada M, Asahara H, Bailey T, Bajic VB, Bauer D, Beckhouse AG, Bertin N, Björkegren J, Brombacher F, Bulger E, Chalk AM, Chiba J, Cloonan N, Dawe A, Dostie J, Engström PG, Essack M, Faulkner GJ, Fink JL, Fredman D, Fujimori K, Furuno M, Gojobori T, Gough J, Grimmond SM, Gustafsson M, Hashimoto M, Hashimoto T, Hatakeyama M, Heinzel S, Hide W, Hofmann O, Hörnquist M, Huminiecki L, Ikeo K, Imamoto N, Inoue S, Inoue Y, Ishihara R, Iwayanagi T, Jacobsen A, Kaur M, Kawaji H, Kerr MC, Kimura R, Kimura S, Kimura Y, Kitano H, Koga H, Kojima T, Kondo S, Konno T, Krogh A, Kruger A, Kumar A, Lenhard B, Lennartsson A, Lindow M, Lizio M, Macpherson C, Maeda N, Maher CA, Maqungo M, Mar J, Matigian NA, Matsuda H, Mattick JS, Meier S, Miyamoto S, Miyamoto-Sato E, Nakabayashi K, Nakachi Y, Nakano M, Nygaard S, Okayama T, Okazaki Y, Okuda-Yabukami H, Orlando V, Otomo J, Pachkov M, Petrovsky N, Plessy C, Quackenbush J, Radovanovic A, Rehli M, Saito R, Sandelin A, Schmeier S, Schönbach C, Schwartz AS, Semple CA, Sera M, Severin J, Shirahige K, Simons C, St Laurent G, Suzuki M, Suzuki T, Sweet MJ, Taft RJ, Takeda S, Takenaka Y, Tan K, Taylor MS, Teasdale RD, Tegnér J, Teichmann S, Valen E, Wahlestedt C, Waki K, Waterhouse A, Wells CA, Winther O, Wu L, Yamaguchi K, Yanagawa H, Yasuda J, Zavolan M, Hume DA; Riken Omics Science Center, Arakawa T, Fukuda S, Imamura K, Kai C, Kaiho A, Kawashima T, Kawazu C, Kitazume Y, Kojima M, Miura H, Murakami K, Murata M, Ninomiya N, Nishiyori H, Noma S, Ogawa C, Sano T, Simon C, Tagami M, Takahashi Y, Kawai J, Hayashizaki Y.

Nat Genet. 2009 May;41(5):553-62. doi: 10.1038/ng.375. Epub 2009 Apr 19.

2.

Building promoter aware transcriptional regulatory networks using siRNA perturbation and deepCAGE.

Vitezic M, Lassmann T, Forrest AR, Suzuki M, Tomaru Y, Kawai J, Carninci P, Suzuki H, Hayashizaki Y, Daub CO.

Nucleic Acids Res. 2010 Dec;38(22):8141-8. doi: 10.1093/nar/gkq729. Epub 2010 Aug 19.

3.

FANTOM4 EdgeExpressDB: an integrated database of promoters, genes, microRNAs, expression dynamics and regulatory interactions.

Severin J, Waterhouse AM, Kawaji H, Lassmann T, van Nimwegen E, Balwierz PJ, de Hoon MJ, Hume DA, Carninci P, Hayashizaki Y, Suzuki H, Daub CO, Forrest AR.

Genome Biol. 2009;10(4):R39. doi: 10.1186/gb-2009-10-4-r39. Epub 2009 Apr 19.

4.

Regulatory interdependence of myeloid transcription factors revealed by Matrix RNAi analysis.

Tomaru Y, Simon C, Forrest AR, Miura H, Kubosaki A, Hayashizaki Y, Suzuki M.

Genome Biol. 2009;10(11):R121. doi: 10.1186/gb-2009-10-11-r121. Epub 2009 Nov 2.

5.

Genome-wide investigation of in vivo EGR-1 binding sites in monocytic differentiation.

Kubosaki A, Tomaru Y, Tagami M, Arner E, Miura H, Suzuki T, Suzuki M, Suzuki H, Hayashizaki Y.

Genome Biol. 2009;10(4):R41. doi: 10.1186/gb-2009-10-4-r41. Epub 2009 Apr 19.

6.

siRNA-mediated AML1/MTG8 depletion affects differentiation and proliferation-associated gene expression in t(8;21)-positive cell lines and primary AML blasts.

Dunne J, Cullmann C, Ritter M, Soria NM, Drescher B, Debernardi S, Skoulakis S, Hartmann O, Krause M, Krauter J, Neubauer A, Young BD, Heidenreich O.

Oncogene. 2006 Oct 5;25(45):6067-78. Epub 2006 May 1.

PMID:
16652140
7.

The combination of gene perturbation assay and ChIP-chip reveals functional direct target genes for IRF8 in THP-1 cells.

Kubosaki A, Lindgren G, Tagami M, Simon C, Tomaru Y, Miura H, Suzuki T, Arner E, Forrest AR, Irvine KM, Schroder K, Hasegawa Y, Kanamori-Katayama M, Rehli M, Hume DA, Kawai J, Suzuki M, Suzuki H, Hayashizaki Y.

Mol Immunol. 2010 Aug;47(14):2295-302. doi: 10.1016/j.molimm.2010.05.289. Epub 2010 Jun 22.

PMID:
20573402
8.

Temporal dynamics and transcriptional control using single-cell gene expression analysis.

Kouno T, de Hoon M, Mar JC, Tomaru Y, Kawano M, Carninci P, Suzuki H, Hayashizaki Y, Shin JW.

Genome Biol. 2013;14(10):R118.

9.

EVI1 promotes tumor growth via transcriptional repression of MS4A3.

Heller G, Rommer A, Steinleitner K, Etzler J, Hackl H, Heffeter P, Tomasich E, Filipits M, Steinmetz B, Topakian T, Klingenbrunner S, Ziegler B, Spittler A, Zöchbauer-Müller S, Berger W, Wieser R.

J Hematol Oncol. 2015 Mar 21;8:28. doi: 10.1186/s13045-015-0124-6.

10.

Update of the FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation.

Kawaji H, Severin J, Lizio M, Forrest AR, van Nimwegen E, Rehli M, Schroder K, Irvine K, Suzuki H, Carninci P, Hayashizaki Y, Daub CO.

Nucleic Acids Res. 2011 Jan;39(Database issue):D856-60. doi: 10.1093/nar/gkq1112. Epub 2010 Nov 12.

11.

Transcriptional regulation of the vacuolar H(+)-ATPase B2 subunit gene in differentiating THP-1 cells.

Lee BS, Underhill DM, Crane MK, Gluck SL.

J Biol Chem. 1995 Mar 31;270(13):7320-9.

12.

Distinct transcriptional networks in quiescent myoblasts: a role for Wnt signaling in reversible vs. irreversible arrest.

Subramaniam S, Sreenivas P, Cheedipudi S, Reddy VR, Shashidhara LS, Chilukoti RK, Mylavarapu M, Dhawan J.

PLoS One. 2013 Jun 3;8(6):e65097. doi: 10.1371/journal.pone.0065097. Print 2014.

13.

Transcription profiling of C/EBP targets identifies Per2 as a gene implicated in myeloid leukemia.

Gery S, Gombart AF, Yi WS, Koeffler C, Hofmann WK, Koeffler HP.

Blood. 2005 Oct 15;106(8):2827-36. Epub 2005 Jun 28.

14.

In silico identification of a core regulatory network of OCT4 in human embryonic stem cells using an integrated approach.

Chavez L, Bais AS, Vingron M, Lehrach H, Adjaye J, Herwig R.

BMC Genomics. 2009 Jul 15;10:314. doi: 10.1186/1471-2164-10-314.

15.

Genetic reconstruction of a functional transcriptional regulatory network.

Hu Z, Killion PJ, Iyer VR.

Nat Genet. 2007 May;39(5):683-7. Epub 2007 Apr 8.

PMID:
17417638
16.

MINCR is a MYC-induced lncRNA able to modulate MYC's transcriptional network in Burkitt lymphoma cells.

Doose G, Haake A, Bernhart SH, López C, Duggimpudi S, Wojciech F, Bergmann AK, Borkhardt A, Burkhardt B, Claviez A, Dimitrova L, Haas S, Hoell JI, Hummel M, Karsch D, Klapper W, Kleo K, Kretzmer H, Kreuz M, Küppers R, Lawerenz C, Lenze D, Loeffler M, Mantovani-Löffler L, Möller P, Ott G, Richter J, Rohde M, Rosenstiel P, Rosenwald A, Schilhabel M, Schneider M, Scholz I, Stilgenbauer S, Stunnenberg HG, Szczepanowski M, Trümper L, Weniger MA; ICGC MMML-Seq Consortium, Hoffmann S, Siebert R, Iaccarino I.

Proc Natl Acad Sci U S A. 2015 Sep 22;112(38):E5261-70. doi: 10.1073/pnas.1505753112. Epub 2015 Sep 8.

17.

Applying attractor dynamics to infer gene regulatory interactions involved in cellular differentiation.

Ghaffarizadeh A, Podgorski GJ, Flann NS.

Biosystems. 2017 May;155:29-41. doi: 10.1016/j.biosystems.2016.12.004. Epub 2017 Feb 28.

PMID:
28254369
18.

Deregulated KLF4 Expression in Myeloid Leukemias Alters Cell Proliferation and Differentiation through MicroRNA and Gene Targets.

Morris VA, Cummings CL, Korb B, Boaglio S, Oehler VG.

Mol Cell Biol. 2015 Dec 7;36(4):559-73. doi: 10.1128/MCB.00712-15. Print 2016 Feb 15.

19.

Transcriptome analysis of monocytic leukemia cell differentiation.

Piquemal D, Commes T, Manchon L, Lejeune M, Ferraz C, Pugnère D, Demaille J, Elalouf JM, Marti J.

Genomics. 2002 Sep;80(3):361-71.

PMID:
12213207
20.

Transcriptional features of genomic regulatory blocks.

Akalin A, Fredman D, Arner E, Dong X, Bryne JC, Suzuki H, Daub CO, Hayashizaki Y, Lenhard B.

Genome Biol. 2009;10(4):R38. doi: 10.1186/gb-2009-10-4-r38. Epub 2009 Apr 19.

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