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Items: 16

1.

Transcriptional and Chromatin Dynamics of Muscle Regeneration after Severe Trauma.

Aguilar CA, Pop R, Shcherbina A, Watts A, Matheny RW Jr, Cacchiarelli D, Han WM, Shin E, Nakhai SA, Jang YC, Carrigan CT, Gifford CA, Kottke MA, Cesana M, Lee J, Urso ML, Meissner A.

Stem Cell Reports. 2016 Nov 8;7(5):983-997. doi: 10.1016/j.stemcr.2016.09.009.

2.

Phenotypic Characterization of a Comprehensive Set of MAPK1/ERK2 Missense Mutants.

Brenan L, Andreev A, Cohen O, Pantel S, Kamburov A, Cacchiarelli D, Persky NS, Zhu C, Bagul M, Goetz EM, Burgin AB, Garraway LA, Getz G, Mikkelsen TS, Piccioni F, Root DE, Johannessen CM.

Cell Rep. 2016 Oct 18;17(4):1171-1183. doi: 10.1016/j.celrep.2016.09.061.

3.

LIN28 Regulates Stem Cell Metabolism and Conversion to Primed Pluripotency.

Zhang J, Ratanasirintrawoot S, Chandrasekaran S, Wu Z, Ficarro SB, Yu C, Ross CA, Cacchiarelli D, Xia Q, Seligson M, Shinoda G, Xie W, Cahan P, Wang L, Ng SC, Tintara S, Trapnell C, Onder T, Loh YH, Mikkelsen T, Sliz P, Teitell MA, Asara JM, Marto JA, Li H, Collins JJ, Daley GQ.

Cell Stem Cell. 2016 Jul 7;19(1):66-80. doi: 10.1016/j.stem.2016.05.009.

PMID:
27320042
4.

Integrative Analyses of Human Reprogramming Reveal Dynamic Nature of Induced Pluripotency.

Cacchiarelli D, Trapnell C, Ziller MJ, Soumillon M, Cesana M, Karnik R, Donaghey J, Smith ZD, Ratanasirintrawoot S, Zhang X, Ho Sui SJ, Wu Z, Akopian V, Gifford CA, Doench J, Rinn JL, Daley GQ, Meissner A, Lander ES, Mikkelsen TS.

Cell. 2015 Jul 16;162(2):412-24. doi: 10.1016/j.cell.2015.06.016.

5.

Dissecting neural differentiation regulatory networks through epigenetic footprinting.

Ziller MJ, Edri R, Yaffe Y, Donaghey J, Pop R, Mallard W, Issner R, Gifford CA, Goren A, Xing J, Gu H, Cacchiarelli D, Tsankov AM, Epstein C, Rinn JL, Mikkelsen TS, Kohlbacher O, Gnirke A, Bernstein BE, Elkabetz Y, Meissner A.

Nature. 2015 Feb 19;518(7539):355-9. doi: 10.1038/nature13990.

6.

Perturbation of m6A writers reveals two distinct classes of mRNA methylation at internal and 5' sites.

Schwartz S, Mumbach MR, Jovanovic M, Wang T, Maciag K, Bushkin GG, Mertins P, Ter-Ovanesyan D, Habib N, Cacchiarelli D, Sanjana NE, Freinkman E, Pacold ME, Satija R, Mikkelsen TS, Hacohen N, Zhang F, Carr SA, Lander ES, Regev A.

Cell Rep. 2014 Jul 10;8(1):284-96. doi: 10.1016/j.celrep.2014.05.048.

7.

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells.

Trapnell C, Cacchiarelli D, Grimsby J, Pokharel P, Li S, Morse M, Lennon NJ, Livak KJ, Mikkelsen TS, Rinn JL.

Nat Biotechnol. 2014 Apr;32(4):381-6. doi: 10.1038/nbt.2859.

8.

Brief report: importance of SOX8 for in vitro chondrogenic differentiation of human mesenchymal stromal cells.

Herlofsen SR, Høiby T, Cacchiarelli D, Zhang X, Mikkelsen TS, Brinchmann JE.

Stem Cells. 2014 Jun;32(6):1629-35. doi: 10.1002/stem.1642.

9.

Biogenesis and function of non-coding RNAs in muscle differentiation and in Duchenne muscular dystrophy.

Twayana S, Legnini I, Cesana M, Cacchiarelli D, Morlando M, Bozzoni I.

Biochem Soc Trans. 2013 Aug;41(4):844-9. doi: 10.1042/BST20120353. Review.

PMID:
23863142
10.

A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA.

Cesana M, Cacchiarelli D, Legnini I, Santini T, Sthandier O, Chinappi M, Tramontano A, Bozzoni I.

Cell. 2011 Oct 14;147(2):358-69. doi: 10.1016/j.cell.2011.09.028. Erratum in: Cell. 2011 Nov 11;147(4):947.

11.

miRNAs as serum biomarkers for Duchenne muscular dystrophy.

Cacchiarelli D, Legnini I, Martone J, Cazzella V, D'Amico A, Bertini E, Bozzoni I.

EMBO Mol Med. 2011 May;3(5):258-65. doi: 10.1002/emmm.201100133.

12.

miR-31 modulates dystrophin expression: new implications for Duchenne muscular dystrophy therapy.

Cacchiarelli D, Incitti T, Martone J, Cesana M, Cazzella V, Santini T, Sthandier O, Bozzoni I.

EMBO Rep. 2011 Feb;12(2):136-41. doi: 10.1038/embor.2010.208.

13.

MicroRNAs involved in molecular circuitries relevant for the Duchenne muscular dystrophy pathogenesis are controlled by the dystrophin/nNOS pathway.

Cacchiarelli D, Martone J, Girardi E, Cesana M, Incitti T, Morlando M, Nicoletti C, Santini T, Sthandier O, Barberi L, Auricchio A, Musarò A, Bozzoni I.

Cell Metab. 2010 Oct 6;12(4):341-51. doi: 10.1016/j.cmet.2010.07.008.

14.

Coupled RNA processing and transcription of intergenic primary microRNAs.

Ballarino M, Pagano F, Girardi E, Morlando M, Cacchiarelli D, Marchioni M, Proudfoot NJ, Bozzoni I.

Mol Cell Biol. 2009 Oct;29(20):5632-8. doi: 10.1128/MCB.00664-09.

15.

MicroRNAs as prime players in a combinatorial view of evolution.

Cacchiarelli D, Santoni D, Bozzoni I.

RNA Biol. 2008 Jul-Sep;5(3):120-122.

PMID:
18698151
16.

Duplication of the dystroglycan gene in most branches of teleost fish.

Pavoni E, Cacchiarelli D, Tittarelli R, Orsini M, Galtieri A, Giardina B, Brancaccio A.

BMC Mol Biol. 2007 May 17;8:34.

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