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Items: 1 to 20 of 121

1.

Evidence for convergent evolution of SINE-directed Staufen-mediated mRNA decay.

Lucas BA, Lavi E, Shiue L, Cho H, Katzman S, Miyoshi K, Siomi MC, Carmel L, Ares M Jr, Maquat LE.

Proc Natl Acad Sci U S A. 2018 Jan 30;115(5):968-973. doi: 10.1073/pnas.1715531115. Epub 2018 Jan 16.

2.

Autogenous cross-regulation of Quaking mRNA processing and translation balances Quaking functions in splicing and translation.

Fagg WS, Liu N, Fair JH, Shiue L, Katzman S, Donohue JP, Ares M Jr.

Genes Dev. 2017 Sep 15;31(18):1894-1909. doi: 10.1101/gad.302059.117. Epub 2017 Oct 11.

3.

RNA-binding protein CPEB1 remodels host and viral RNA landscapes.

Batra R, Stark TJ, Clark E, Belzile JP, Wheeler EC, Yee BA, Huang H, Gelboin-Burkhart C, Huelga SC, Aigner S, Roberts BT, Bos TJ, Sathe S, Donohue JP, Rigo F, Ares M Jr, Spector DH, Yeo GW.

Nat Struct Mol Biol. 2016 Dec;23(12):1101-1110. doi: 10.1038/nsmb.3310. Epub 2016 Oct 24.

4.

Protein-RNA Networks Regulated by Normal and ALS-Associated Mutant HNRNPA2B1 in the Nervous System.

Martinez FJ, Pratt GA, Van Nostrand EL, Batra R, Huelga SC, Kapeli K, Freese P, Chun SJ, Ling K, Gelboin-Burkhart C, Fijany L, Wang HC, Nussbacher JK, Broski SM, Kim HJ, Lardelli R, Sundararaman B, Donohue JP, Javaherian A, Lykke-Andersen J, Finkbeiner S, Bennett CF, Ares M Jr, Burge CB, Taylor JP, Rigo F, Yeo GW.

Neuron. 2016 Nov 23;92(4):780-795. doi: 10.1016/j.neuron.2016.09.050. Epub 2016 Oct 20.

5.

Distinct and shared functions of ALS-associated proteins TDP-43, FUS and TAF15 revealed by multisystem analyses.

Kapeli K, Pratt GA, Vu AQ, Hutt KR, Martinez FJ, Sundararaman B, Batra R, Freese P, Lambert NJ, Huelga SC, Chun SJ, Liang TY, Chang J, Donohue JP, Shiue L, Zhang J, Zhu H, Cambi F, Kasarskis E, Hoon S, Ares M Jr, Burge CB, Ravits J, Rigo F, Yeo GW.

Nat Commun. 2016 Jul 5;7:12143. doi: 10.1038/ncomms12143.

6.

SMITten by the Speed of Splicing.

Johnson TL, Ares M Jr.

Cell. 2016 Apr 7;165(2):265-7. doi: 10.1016/j.cell.2016.03.035.

7.

Quaking promotes monocyte differentiation into pro-atherogenic macrophages by controlling pre-mRNA splicing and gene expression.

de Bruin RG, Shiue L, Prins J, de Boer HC, Singh A, Fagg WS, van Gils JM, Duijs JM, Katzman S, Kraaijeveld AO, Böhringer S, Leung WY, Kielbasa SM, Donahue JP, van der Zande PH, Sijbom R, van Alem CM, Bot I, van Kooten C, Jukema JW, Van Esch H, Rabelink TJ, Kazan H, Biessen EA, Ares M Jr, van Zonneveld AJ, van der Veer EP.

Nat Commun. 2016 Mar 31;7:10846. doi: 10.1038/ncomms10846.

8.

Analysis of Splicing Complexes on Native Gels.

Ares M Jr.

Cold Spring Harb Protoc. 2015 Aug 3;2015(8):787. doi: 10.1101/pdb.err089896. No abstract available.

PMID:
26240400
9.

Analysis of Splicing In Vitro Using Extracts of Saccharomyces cerevisiae.

Ares M Jr.

Cold Spring Harb Protoc. 2015 Aug 3;2015(8):786. doi: 10.1101/pdb.err089888. No abstract available.

PMID:
26240399
10.

Intron Invasions Trace Algal Speciation and Reveal Nearly Identical Arctic and Antarctic Micromonas Populations.

Simmons MP, Bachy C, Sudek S, van Baren MJ, Sudek L, Ares M Jr, Worden AZ.

Mol Biol Evol. 2015 Sep;32(9):2219-35. doi: 10.1093/molbev/msv122. Epub 2015 May 20.

11.

Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity.

Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course.

Elife. 2015 Apr 28;4:e06416. doi: 10.7554/eLife.06416.

12.

Coffee with Ribohipster.

Ares M Jr.

RNA. 2015 Apr;21(4):494-6. doi: 10.1261/rna.050468.115. No abstract available.

13.

Methods for processing high-throughput RNA sequencing data.

Ares M Jr.

Cold Spring Harb Protoc. 2014 Nov 3;2014(11):1139-48. doi: 10.1101/pdb.top083352.

PMID:
25368318
14.

Context-dependent control of alternative splicing by RNA-binding proteins.

Fu XD, Ares M Jr.

Nat Rev Genet. 2014 Oct;15(10):689-701. doi: 10.1038/nrg3778. Epub 2014 Aug 12. Review.

15.

RBPmap: a web server for mapping binding sites of RNA-binding proteins.

Paz I, Kosti I, Ares M Jr, Cline M, Mandel-Gutfreund Y.

Nucleic Acids Res. 2014 Jul;42(Web Server issue):W361-7. doi: 10.1093/nar/gku406. Epub 2014 May 14.

16.

Methods for processing microarray data.

Ares M Jr.

Cold Spring Harb Protoc. 2014 Feb 1;2014(2):225-9. doi: 10.1101/pdb.prot080507.

PMID:
24492782
17.

Microarray slide hybridization using fluorescently labeled cDNA.

Ares M Jr.

Cold Spring Harb Protoc. 2014 Jan 1;2014(1):124-9. doi: 10.1101/pdb.prot080135.

PMID:
24371320
18.

Preparation of fluorescent-dye-labeled cDNA from RNA for microarray hybridization.

Ares M Jr.

Cold Spring Harb Protoc. 2014 Jan 1;2014(1):119-23. doi: 10.1101/pdb.prot080127.

PMID:
24371319
19.

High-yield synthesis of RNA using T7 RNA polymerase and plasmid DNA or oligonucleotide templates.

Nilsen TW, Rio DC, Ares M Jr.

Cold Spring Harb Protoc. 2013 Nov 1;2013(11). pii: pdb.prot078535. doi: 10.1101/pdb.prot078535.

PMID:
24184762
20.

Safer one-pot synthesis of the 'SHAPE' reagent 1-methyl-7-nitroisatoic anhydride (1m7).

Turner R, Shefer K, Ares M Jr.

RNA. 2013 Dec;19(12):1857-63. doi: 10.1261/rna.042374.113. Epub 2013 Oct 18.

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