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Items: 1 to 50 of 214

1.

CBP and P300 regulate distinct gene networks required for human primary myoblast differentiation and muscle integrity.

Fauquier L, Azzag K, Parra MAM, Quillien A, Boulet M, Diouf S, Carnac G, Waltzer L, Gronemeyer H, Vandel L.

Sci Rep. 2018 Aug 22;8(1):12629. doi: 10.1038/s41598-018-31102-4.

2.

Modeling gene-regulatory networks to describe cell fate transitions and predict master regulators.

Cholley PE, Moehlin J, Rohmer A, Zilliox V, Nicaise S, Gronemeyer H, Mendoza-Parra MA.

NPJ Syst Biol Appl. 2018 Aug 2;4:29. doi: 10.1038/s41540-018-0066-z. eCollection 2018.

3.

Development of biotin-retinoid conjugates as chemical probes for analysis of retinoid function.

Fujii S, Mori S, Kagechika H, Mendoza Parra MA, Gronemeyer H.

Bioorg Med Chem Lett. 2018 Aug 1;28(14):2442-2445. doi: 10.1016/j.bmcl.2018.06.011. Epub 2018 Jun 6.

PMID:
29908657
4.

Molecular mechanisms of cell death: recommendations of the Nomenclature Committee on Cell Death 2018.

Galluzzi L, Vitale I, Aaronson SA, Abrams JM, Adam D, Agostinis P, Alnemri ES, Altucci L, Amelio I, Andrews DW, Annicchiarico-Petruzzelli M, Antonov AV, Arama E, Baehrecke EH, Barlev NA, Bazan NG, Bernassola F, Bertrand MJM, Bianchi K, Blagosklonny MV, Blomgren K, Borner C, Boya P, Brenner C, Campanella M, Candi E, Carmona-Gutierrez D, Cecconi F, Chan FK, Chandel NS, Cheng EH, Chipuk JE, Cidlowski JA, Ciechanover A, Cohen GM, Conrad M, Cubillos-Ruiz JR, Czabotar PE, D'Angiolella V, Dawson TM, Dawson VL, De Laurenzi V, De Maria R, Debatin KM, DeBerardinis RJ, Deshmukh M, Di Daniele N, Di Virgilio F, Dixit VM, Dixon SJ, Duckett CS, Dynlacht BD, El-Deiry WS, Elrod JW, Fimia GM, Fulda S, García-Sáez AJ, Garg AD, Garrido C, Gavathiotis E, Golstein P, Gottlieb E, Green DR, Greene LA, Gronemeyer H, Gross A, Hajnoczky G, Hardwick JM, Harris IS, Hengartner MO, Hetz C, Ichijo H, Jäättelä M, Joseph B, Jost PJ, Juin PP, Kaiser WJ, Karin M, Kaufmann T, Kepp O, Kimchi A, Kitsis RN, Klionsky DJ, Knight RA, Kumar S, Lee SW, Lemasters JJ, Levine B, Linkermann A, Lipton SA, Lockshin RA, López-Otín C, Lowe SW, Luedde T, Lugli E, MacFarlane M, Madeo F, Malewicz M, Malorni W, Manic G, Marine JC, Martin SJ, Martinou JC, Medema JP, Mehlen P, Meier P, Melino S, Miao EA, Molkentin JD, Moll UM, Muñoz-Pinedo C, Nagata S, Nuñez G, Oberst A, Oren M, Overholtzer M, Pagano M, Panaretakis T, Pasparakis M, Penninger JM, Pereira DM, Pervaiz S, Peter ME, Piacentini M, Pinton P, Prehn JHM, Puthalakath H, Rabinovich GA, Rehm M, Rizzuto R, Rodrigues CMP, Rubinsztein DC, Rudel T, Ryan KM, Sayan E, Scorrano L, Shao F, Shi Y, Silke J, Simon HU, Sistigu A, Stockwell BR, Strasser A, Szabadkai G, Tait SWG, Tang D, Tavernarakis N, Thorburn A, Tsujimoto Y, Turk B, Vanden Berghe T, Vandenabeele P, Vander Heiden MG, Villunger A, Virgin HW, Vousden KH, Vucic D, Wagner EF, Walczak H, Wallach D, Wang Y, Wells JA, Wood W, Yuan J, Zakeri Z, Zhivotovsky B, Zitvogel L, Melino G, Kroemer G.

Cell Death Differ. 2018 Mar;25(3):486-541. doi: 10.1038/s41418-017-0012-4. Epub 2018 Jan 23. Review.

5.

Senescence-associated reprogramming promotes cancer stemness.

Milanovic M, Fan DNY, Belenki D, Däbritz JHM, Zhao Z, Yu Y, Dörr JR, Dimitrova L, Lenze D, Monteiro Barbosa IA, Mendoza-Parra MA, Kanashova T, Metzner M, Pardon K, Reimann M, Trumpp A, Dörken B, Zuber J, Gronemeyer H, Hummel M, Dittmar G, Lee S, Schmitt CA.

Nature. 2018 Jan 4;553(7686):96-100. doi: 10.1038/nature25167. Epub 2017 Dec 20.

PMID:
29258294
6.

Dual role of DR5 in death and survival signaling leads to TRAIL resistance in cancer cells.

Shlyakhtina Y, Pavet V, Gronemeyer H.

Cell Death Dis. 2017 Aug 31;8(8):e3025. doi: 10.1038/cddis.2017.423.

7.

Epimetheus - a multi-profile normalizer for epigenomic sequencing data.

Saleem MM, Mendoza-Parra MA, Cholley PE, Blum M, Gronemeyer H.

BMC Bioinformatics. 2017 May 12;18(1):259. doi: 10.1186/s12859-017-1655-3.

8.

The KDM5 family is required for activation of pro-proliferative cell cycle genes during adipocyte differentiation.

Brier AB, Loft A, Madsen JGS, Rosengren T, Nielsen R, Schmidt SF, Liu Z, Yan Q, Gronemeyer H, Mandrup S.

Nucleic Acids Res. 2017 Feb 28;45(4):1743-1759. doi: 10.1093/nar/gkw1156.

9.

Reconstructed cell fate-regulatory programs in stem cells reveal hierarchies and key factors of neurogenesis.

Mendoza-Parra MA, Malysheva V, Mohamed Saleem MA, Lieb M, Godel A, Gronemeyer H.

Genome Res. 2016 Nov;26(11):1505-1519. Epub 2016 Sep 20.

10.

Antibody performance in ChIP-sequencing assays: From quality scores of public data sets to quantitative certification.

Mendoza-Parra MA, Saravaki V, Cholley PE, Blum M, Billoré B, Gronemeyer H.

Version 2. F1000Res. 2016 Jan 12 [revised 2016 Jan 1];5:54. doi: 10.12688/f1000research.7637.2. eCollection 2016.

11.

Reconstruction of gene regulatory networks reveals chromatin remodelers and key transcription factors in tumorigenesis.

Malysheva V, Mendoza-Parra MA, Saleem MA, Gronemeyer H.

Genome Med. 2016 May 19;8(1):57. doi: 10.1186/s13073-016-0310-3.

12.

LOGIQA: a database dedicated to long-range genome interactions quality assessment.

Mendoza-Parra MA, Blum M, Malysheva V, Cholley PE, Gronemeyer H.

BMC Genomics. 2016 May 16;17:355. doi: 10.1186/s12864-016-2642-1.

13.

NGS-QC Generator: A Quality Control System for ChIP-Seq and Related Deep Sequencing-Generated Datasets.

Mendoza-Parra MA, Saleem MA, Blum M, Cholley PE, Gronemeyer H.

Methods Mol Biol. 2016;1418:243-65. doi: 10.1007/978-1-4939-3578-9_13.

PMID:
27008019
14.

TARDIS, a targeted RNA directional sequencing method for rare RNA discovery.

Portal MM, Pavet V, Erb C, Gronemeyer H.

Nat Protoc. 2015 Dec;10(12):1915-38. doi: 10.1038/nprot.2015.120. Epub 2015 Oct 29.

PMID:
26513670
15.

Assessing quality standards for ChIP-seq and related massive parallel sequencing-generated datasets: When rating goes beyond avoiding the crisis.

Mendoza-Parra MA, Gronemeyer H.

Genom Data. 2014 Aug 14;2:268-73. doi: 10.1016/j.gdata.2014.08.002. eCollection 2014 Dec.

16.

Modulation of Retinoic Acid Receptor Subtypes by 5- and 8-Substituted (Naphthalen-2-yl)-based Arotinoids.

Álvarez S, Lieb M, Martínez C, Khanwalkar H, Rodríguez-Barrios F, Álvarez R, Gronemeyer H, de Lera AR.

ChemMedChem. 2015 Aug;10(8):1378-91. doi: 10.1002/cmdc.201500150. Epub 2015 May 26.

PMID:
26012882
17.

An Unexpected Mode Of Binding Defines BMS948 as A Full Retinoic Acid Receptor β (RARβ, NR1B2) Selective Agonist.

Nadendla E, Teyssier C, Delfosse V, Vivat V, Krishnasamy G, Gronemeyer H, Bourguet W, Germain P.

PLoS One. 2015 May 1;10(5):e0123195. doi: 10.1371/journal.pone.0123195. eCollection 2015.

18.

The inactive X chromosome is epigenetically unstable and transcriptionally labile in breast cancer.

Chaligné R, Popova T, Mendoza-Parra MA, Saleem MA, Gentien D, Ban K, Piolot T, Leroy O, Mariani O, Gronemeyer H, Vincent-Salomon A, Stern MH, Heard E.

Genome Res. 2015 Apr;25(4):488-503. doi: 10.1101/gr.185926.114. Epub 2015 Feb 4.

19.

Critical role of retinoid/rexinoid signaling in mediating transformation and therapeutic response of NUP98-RARG leukemia.

Qiu JJ, Zeisig BB, Li S, Liu W, Chu H, Song Y, Giordano A, Schwaller J, Gronemeyer H, Dong S, So CW.

Leukemia. 2015 May;29(5):1153-62. doi: 10.1038/leu.2014.334. Epub 2014 Dec 16.

PMID:
25510432
20.

Human cells contain natural double-stranded RNAs with potential regulatory functions.

Portal MM, Pavet V, Erb C, Gronemeyer H.

Nat Struct Mol Biol. 2015 Jan;22(1):89-97. doi: 10.1038/nsmb.2934. Epub 2014 Dec 15.

PMID:
25504323
21.

Thioether analogues of disulfide-bridged cyclic peptides targeting death receptor 5: conformational analysis, dimerisation and consequences for receptor activation.

Pulka-Ziach K, Pavet V, Chekkat N, Estieu-Gionnet K, Rohac R, Lechner MC, Smulski CR, Zeder-Lutz G, Altschuh D, Gronemeyer H, Fournel S, Odaert B, Guichard G.

Chembiochem. 2015 Jan 19;16(2):293-301. doi: 10.1002/cbic.201402485. Epub 2014 Dec 8.

PMID:
25487639
22.

Essential versus accessory aspects of cell death: recommendations of the NCCD 2015.

Galluzzi L, Bravo-San Pedro JM, Vitale I, Aaronson SA, Abrams JM, Adam D, Alnemri ES, Altucci L, Andrews D, Annicchiarico-Petruzzelli M, Baehrecke EH, Bazan NG, Bertrand MJ, Bianchi K, Blagosklonny MV, Blomgren K, Borner C, Bredesen DE, Brenner C, Campanella M, Candi E, Cecconi F, Chan FK, Chandel NS, Cheng EH, Chipuk JE, Cidlowski JA, Ciechanover A, Dawson TM, Dawson VL, De Laurenzi V, De Maria R, Debatin KM, Di Daniele N, Dixit VM, Dynlacht BD, El-Deiry WS, Fimia GM, Flavell RA, Fulda S, Garrido C, Gougeon ML, Green DR, Gronemeyer H, Hajnoczky G, Hardwick JM, Hengartner MO, Ichijo H, Joseph B, Jost PJ, Kaufmann T, Kepp O, Klionsky DJ, Knight RA, Kumar S, Lemasters JJ, Levine B, Linkermann A, Lipton SA, Lockshin RA, López-Otín C, Lugli E, Madeo F, Malorni W, Marine JC, Martin SJ, Martinou JC, Medema JP, Meier P, Melino S, Mizushima N, Moll U, Muñoz-Pinedo C, Nuñez G, Oberst A, Panaretakis T, Penninger JM, Peter ME, Piacentini M, Pinton P, Prehn JH, Puthalakath H, Rabinovich GA, Ravichandran KS, Rizzuto R, Rodrigues CM, Rubinsztein DC, Rudel T, Shi Y, Simon HU, Stockwell BR, Szabadkai G, Tait SW, Tang HL, Tavernarakis N, Tsujimoto Y, Vanden Berghe T, Vandenabeele P, Villunger A, Wagner EF, Walczak H, White E, Wood WG, Yuan J, Zakeri Z, Zhivotovsky B, Melino G, Kroemer G.

Cell Death Differ. 2015 Jan;22(1):58-73. doi: 10.1038/cdd.2014.137. Epub 2014 Sep 19. Review.

23.

Integrative genomics to dissect retinoid functions.

Mendoza-Parra MA, Gronemeyer H.

Subcell Biochem. 2014;70:181-202. doi: 10.1007/978-94-017-9050-5_9. Review.

PMID:
24962886
24.

Dual RXR Agonists and RAR Antagonists Based on the Stilbene Retinoid Scaffold.

Martínez C, Lieb M, Alvarez S, Rodríguez-Barrios F, Alvarez R, Khanwalkar H, Gronemeyer H, de Lera AR.

ACS Med Chem Lett. 2014 Mar 19;5(5):533-7. doi: 10.1021/ml400521f. eCollection 2014 May 8.

25.

Senescence-secreted factors activate Myc and sensitize pretransformed cells to TRAIL-induced apoptosis.

Vjetrovic J, Shankaranarayanan P, Mendoza-Parra MA, Gronemeyer H.

Aging Cell. 2014 Jun;13(3):487-96. doi: 10.1111/acel.12197. Epub 2014 Mar 4.

26.

Plasminogen activator urokinase expression reveals TRAIL responsiveness and supports fractional survival of cancer cells.

Pavet V, Shlyakhtina Y, He T, Ceschin DG, Kohonen P, Perälä M, Kallioniemi O, Gronemeyer H.

Cell Death Dis. 2014 Jan 30;5:e1043. doi: 10.1038/cddis.2014.5.

27.

Characterising ChIP-seq binding patterns by model-based peak shape deconvolution.

Mendoza-Parra MA, Nowicka M, Van Gool W, Gronemeyer H.

BMC Genomics. 2013 Nov 26;14:834. doi: 10.1186/1471-2164-14-834.

28.

Functions, therapeutic applications, and synthesis of retinoids and carotenoids.

Álvarez R, Vaz B, Gronemeyer H, de Lera ÁR.

Chem Rev. 2014 Jan 8;114(1):1-125. doi: 10.1021/cr400126u. Epub 2013 Nov 22. Review. No abstract available.

PMID:
24266866
29.

A quality control system for profiles obtained by ChIP sequencing.

Mendoza-Parra MA, Van Gool W, Mohamed Saleem MA, Ceschin DG, Gronemeyer H.

Nucleic Acids Res. 2013 Nov;41(21):e196. doi: 10.1093/nar/gkt829. Epub 2013 Sep 14.

30.

Genome-wide studies of nuclear receptors in cell fate decisions.

Mendoza-Parra MA, Gronemeyer H.

Semin Cell Dev Biol. 2013 Dec;24(10-12):706-15. doi: 10.1016/j.semcdb.2013.07.001. Epub 2013 Aug 2. Review.

PMID:
23916718
31.

A DNA methyltransferase modulator inspired by peyssonenyne natural product structures.

García-Domínguez P, Weiss M, Lepore I, Álvarez R, Altucci L, Gronemeyer H, de Lera ÁR.

ChemMedChem. 2012 Dec;7(12):2101-12. doi: 10.1002/cmdc.201200366. Epub 2012 Oct 9.

PMID:
23047325
32.

Indole-derived psammaplin A analogues as epigenetic modulators with multiple inhibitory activities.

Pereira R, Benedetti R, Pérez-Rodríguez S, Nebbioso A, García-Rodríguez J, Carafa V, Stuhldreier M, Conte M, Rodríguez-Barrios F, Stunnenberg HG, Gronemeyer H, Altucci L, de Lera AR.

J Med Chem. 2012 Nov 26;55(22):9467-91. doi: 10.1021/jm300618u. Epub 2012 Oct 17.

PMID:
23030799
33.

Enantioselective apoptosis induction in histiocytic lymphoma cells and acute promyelocytic leukemia cells.

Ivanova D, Gronemeyer H, Steinberg P, Nau H.

Arch Toxicol. 2013 Feb;87(2):303-10. doi: 10.1007/s00204-012-0930-3. Epub 2012 Sep 26.

PMID:
23010695
34.

Disila-analogues of the synthetic retinoids EC23 and TTNN: synthesis, structure and biological evaluation.

Gluyas JB, Burschka C, Dörrich S, Vallet J, Gronemeyer H, Tacke R.

Org Biomol Chem. 2012 Sep 14;10(34):6914-29. doi: 10.1039/c2ob25989c. Epub 2012 Jul 20.

PMID:
22814352
35.

Aronia melanocarpa juice induces a redox-sensitive p73-related caspase 3-dependent apoptosis in human leukemia cells.

Sharif T, Alhosin M, Auger C, Minker C, Kim JH, Etienne-Selloum N, Bories P, Gronemeyer H, Lobstein A, Bronner C, Fuhrmann G, Schini-Kerth VB.

PLoS One. 2012;7(3):e32526. doi: 10.1371/journal.pone.0032526. Epub 2012 Mar 8.

36.

Single-tube linear DNA amplification for genome-wide studies using a few thousand cells.

Shankaranarayanan P, Mendoza-Parra MA, van Gool W, Trindade LM, Gronemeyer H.

Nat Protoc. 2012 Jan 26;7(2):328-38. doi: 10.1038/nprot.2011.447.

PMID:
22281868
37.

Retinoid receptors and therapeutic applications of RAR/RXR modulators.

le Maire A, Alvarez S, Shankaranarayanan P, Lera AR, Bourguet W, Gronemeyer H.

Curr Top Med Chem. 2012;12(6):505-27. Review.

PMID:
22242853
38.

POLYPHEMUS: R package for comparative analysis of RNA polymerase II ChIP-seq profiles by non-linear normalization.

Mendoza-Parra MA, Sankar M, Walia M, Gronemeyer H.

Nucleic Acids Res. 2012 Feb;40(4):e30. doi: 10.1093/nar/gkr1205. Epub 2011 Dec 7.

39.

Epigenetic multiple modulators.

Álvarez R, Altucci L, Gronemeyer H, de Lera AR.

Curr Top Med Chem. 2011 Nov;11(22):2749-87. Review.

PMID:
22039877
40.

Dissecting the retinoid-induced differentiation of F9 embryonal stem cells by integrative genomics.

Mendoza-Parra MA, Walia M, Sankar M, Gronemeyer H.

Mol Syst Biol. 2011 Oct 11;7:538. doi: 10.1038/msb.2011.73.

41.

Death receptor pathway activation and increase of ROS production by the triple epigenetic inhibitor UVI5008.

Nebbioso A, Pereira R, Khanwalkar H, Matarese F, García-Rodríguez J, Miceli M, Logie C, Kedinger V, Ferrara F, Stunnenberg HG, de Lera AR, Gronemeyer H, Altucci L.

Mol Cancer Ther. 2011 Dec;10(12):2394-404. doi: 10.1158/1535-7163.MCT-11-0525. Epub 2011 Oct 6.

42.

Total synthesis of the proposed structures of the DNA methyl transferase inhibitors peyssonenynes, and structural revision of peyssonenyne B.

García-Domínguez P, Lepore I, Erb C, Gronemeyer H, Altucci L, Álvarez R, de Lera AR.

Org Biomol Chem. 2011 Oct 21;9(20):6979-87. doi: 10.1039/c1ob05932g. Epub 2011 Aug 22.

PMID:
21858378
43.

Transformation-dependent silencing of tumor-selective apoptosis-inducing TRAIL by DNA hypermethylation is antagonized by decitabine.

Lund P, Kotova I, Kedinger V, Khanwalkar H, Voltz E, Hahn WC, Gronemeyer H.

Mol Cancer Ther. 2011 Sep;10(9):1611-23. doi: 10.1158/1535-7163.MCT-11-0140. Epub 2011 Jun 22.

44.

Single-tube linear DNA amplification (LinDA) for robust ChIP-seq.

Shankaranarayanan P, Mendoza-Parra MA, Walia M, Wang L, Li N, Trindade LM, Gronemeyer H.

Nat Methods. 2011 Jun 5;8(7):565-7. doi: 10.1038/nmeth.1626.

PMID:
21642965
45.

Methylation specifies distinct estrogen-induced binding site repertoires of CBP to chromatin.

Ceschin DG, Walia M, Wenk SS, Duboé C, Gaudon C, Xiao Y, Fauquier L, Sankar M, Vandel L, Gronemeyer H.

Genes Dev. 2011 Jun 1;25(11):1132-46. doi: 10.1101/gad.619211.

46.

Modulation of RXR function through ligand design.

Pérez E, Bourguet W, Gronemeyer H, de Lera AR.

Biochim Biophys Acta. 2012 Jan;1821(1):57-69. doi: 10.1016/j.bbalip.2011.04.003. Epub 2011 Apr 16. Review.

PMID:
21515403
47.

Design and stereoselective synthesis of retinoids with ferrocene or N-butylcarbazole pharmacophores that induce post-differentiation apoptosis in acute promyelocytic leukemia cells.

Ivanova D, Gronemeyer H, de Lera AR.

ChemMedChem. 2011 Aug 1;6(8):1518-29. doi: 10.1002/cmdc.201100065. Epub 2011 Apr 19.

PMID:
21506276
48.
49.

Regulator of calcineurin 1 (RCAN1) facilitates neuronal apoptosis through caspase-3 activation.

Sun X, Wu Y, Chen B, Zhang Z, Zhou W, Tong Y, Yuan J, Xia K, Gronemeyer H, Flavell RA, Song W.

J Biol Chem. 2011 Mar 18;286(11):9049-62. doi: 10.1074/jbc.M110.177519. Epub 2011 Jan 7.

50.

Epigenetic profiling of the antitumor natural product psammaplin A and its analogues.

García J, Franci G, Pereira R, Benedetti R, Nebbioso A, Rodríguez-Barrios F, Gronemeyer H, Altucci L, de Lera AR.

Bioorg Med Chem. 2011 Jun 15;19(12):3637-49. doi: 10.1016/j.bmc.2010.12.026. Epub 2010 Dec 15.

PMID:
21215647

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