| Year |
Citation |
Score |
| 2024 |
Vo JM, Mulroney L, Quick-Cleveland J, Jain M, Akeson M, Ares M. Corrigendum: Synthesis of modified nucleotide polymers by the poly(U) polymerase Cid1: application to direct RNA sequencing on nanopores. Rna (New York, N.Y.). 30: 1686. PMID 39799412 DOI: 10.1261/rna.080263.124 |
0.328 |
|
| 2024 |
Yao J, Xu H, Ferrick-Kiddie EA, Nottingham RM, Wu DC, Ares M, Lambowitz AM. Human cells contain myriad excised linear intron RNAs with links to gene regulation and potential utility as biomarkers. Plos Genetics. 20: e1011416. PMID 39325823 DOI: 10.1371/journal.pgen.1011416 |
0.447 |
|
| 2024 |
Ares M, Igel H, Katzman S, Donohue JP. Intron lariat spliceosomes convert lariats to true circles: implications for intron transposition. Genes & Development. PMID 38724209 DOI: 10.1101/gad.351764.124 |
0.4 |
|
| 2024 |
Ares M, Igel H, Katzman S, Donohue JP. Intron-lariat spliceosomes convert lariats to true circles: implications for intron transposition. Biorxiv : the Preprint Server For Biology. PMID 38585890 DOI: 10.1101/2024.03.26.586863 |
0.408 |
|
| 2023 |
Hunter O, Talkish J, Quick-Cleveland J, Igel H, Tan A, Kuersten S, Katzman S, Donohue JP, Jurica MS, Ares M. Broad variation in response of individual introns to splicing inhibitors in a humanized yeast strain. Rna (New York, N.Y.). PMID 38071476 DOI: 10.1261/rna.079866.123 |
0.311 |
|
| 2022 |
Bailey AD, Talkish J, Ding H, Igel H, Duran A, Mantripragada S, Paten B, Ares M. Concerted modification of nucleotides at functional centers of the ribosome revealed by single-molecule RNA modification profiling. Elife. 11. PMID 35384842 DOI: 10.7554/eLife.76562 |
0.451 |
|
| 2021 |
Vo J, Mulroney L, Quick-Cleveland J, Jain M, Akeson M, Ares M. Synthesis of modified nucleotide polymers by the poly(U) polymerase Cid1: Application to direct RNA sequencing on nanopores. Rna (New York, N.Y.). PMID 34446532 DOI: 10.1261/rna.078898.121 |
0.453 |
|
| 2019 |
Talkish J, Igel H, Perriman RJ, Shiue L, Katzman S, Munding EM, Shelansky R, Donohue JP, Ares M. Rapidly evolving protointrons in Saccharomyces genomes revealed by a hungry spliceosome. Plos Genetics. 15: e1008249. PMID 31437148 DOI: 10.1371/Journal.Pgen.1008249 |
0.442 |
|
| 2019 |
Talkish J, Igel H, Hunter O, Horner SW, Jeffery NN, Leach JR, Jenkins JL, Kielkopf CL, Ares M. Cus2 enforces the first ATP-dependent step of splicing by binding to yeast SF3b1 through a UHM-ULM interaction. Rna (New York, N.Y.). PMID 31110137 DOI: 10.1261/Rna.070649.119 |
0.36 |
|
| 2018 |
Lucas BA, Lavi E, Shiue L, Cho H, Katzman S, Miyoshi K, Siomi MC, Carmel L, Ares M, Maquat LE. Evidence for convergent evolution of SINE-directed Staufen-mediated mRNA decay. Proceedings of the National Academy of Sciences of the United States of America. PMID 29339519 DOI: 10.1073/Pnas.1715531115 |
0.415 |
|
| 2017 |
Fagg WS, Liu N, Fair JH, Shiue L, Katzman S, Donohue JP, Ares M. Autogenous cross-regulation of Quaking mRNA processing and translation balances Quaking functions in splicing and translation. Genes & Development. PMID 29021242 DOI: 10.1101/Gad.302059.117 |
0.536 |
|
| 2016 |
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, et al. RNA-binding protein CPEB1 remodels host and viral RNA landscapes. Nature Structural & Molecular Biology. PMID 27775709 DOI: 10.1038/Nsmb.3310 |
0.436 |
|
| 2016 |
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, ... ... Ares M, et al. Protein-RNA Networks Regulated by Normal and ALS-Associated Mutant HNRNPA2B1 in the Nervous System. Neuron. PMID 27773581 DOI: 10.1016/J.Neuron.2016.09.050 |
0.369 |
|
| 2016 |
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, ... ... Ares M, et al. Distinct and shared functions of ALS-associated proteins TDP-43, FUS and TAF15 revealed by multisystem analyses. Nature Communications. 7: 12143. PMID 27378374 DOI: 10.1038/Ncomms12143 |
0.409 |
|
| 2016 |
Johnson TL, Ares M. SMITten by the Speed of Splicing. Cell. 165: 265-7. PMID 27058658 DOI: 10.1016/J.Cell.2016.03.035 |
0.42 |
|
| 2016 |
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, ... Ares M, et al. Quaking promotes monocyte differentiation into pro-atherogenic macrophages by controlling pre-mRNA splicing and gene expression. Nature Communications. 7: 10846. PMID 27029405 DOI: 10.1038/Ncomms10846 |
0.458 |
|
| 2016 |
de Bruin R, Shiue L, Prins J, Djaramshi A, de Boer H, Fagg W, van Gils J, Duijs J, van Kooten C, Jukema J, van Esch H, Rabelink T, Kazan H, Biessen E, Ares M, et al. Quaking post-transcriptionally promotes differentiation of monocytes into pro-atherogenic macrophages by controling pre-mRNA splicing and gene expression Atherosclerosis. 252: e256. DOI: 10.1016/J.Atherosclerosis.2016.07.076 |
0.351 |
|
| 2015 |
Ares M. Analysis of Splicing In Vitro Using Extracts of Saccharomyces cerevisiae. Cold Spring Harbor Protocols. 2015: 786. PMID 26240399 DOI: 10.1101/Pdb.Err089888 |
0.372 |
|
| 2015 |
Simmons MP, Bachy C, Sudek S, van Baren MJ, Sudek L, Ares M, Worden AZ. Intron Invasions Trace Algal Speciation and Reveal Nearly Identical Arctic and Antarctic Micromonas Populations. Molecular Biology and Evolution. 32: 2219-35. PMID 25998521 DOI: 10.1093/Molbev/Msv122 |
0.314 |
|
| 2015 |
Ares M. Coffee with Ribohipster. Rna (New York, N.Y.). 21: 494-6. PMID 25780110 DOI: 10.1261/Rna.050468.115 |
0.346 |
|
| 2014 |
Ares M. Methods for processing high-throughput RNA sequencing data. Cold Spring Harbor Protocols. 2014: 1139-48. PMID 25368318 DOI: 10.1101/Pdb.Top083352 |
0.498 |
|
| 2014 |
Fu XD, Ares M. Context-dependent control of alternative splicing by RNA-binding proteins. Nature Reviews. Genetics. 15: 689-701. PMID 25112293 DOI: 10.1038/Nrg3778 |
0.539 |
|
| 2014 |
Paz I, Kosti I, Ares M, Cline M, Mandel-Gutfreund Y. RBPmap: a web server for mapping binding sites of RNA-binding proteins. Nucleic Acids Research. 42: W361-7. PMID 24829458 DOI: 10.1093/Nar/Gku406 |
0.47 |
|
| 2014 |
Ares M. Methods for processing microarray data. Cold Spring Harbor Protocols. 2014: 225-9. PMID 24492782 DOI: 10.1101/Pdb.Prot080507 |
0.417 |
|
| 2014 |
Ares M. Microarray slide hybridization using fluorescently labeled cDNA. Cold Spring Harbor Protocols. 2014: 124-9. PMID 24371320 DOI: 10.1101/Pdb.Prot080135 |
0.42 |
|
| 2014 |
Ares M. Preparation of fluorescent-dye-labeled cDNA from RNA for microarray hybridization. Cold Spring Harbor Protocols. 2014: 119-23. PMID 24371319 DOI: 10.1101/Pdb.Prot080127 |
0.395 |
|
| 2013 |
Nilsen TW, Rio DC, Ares M. High-yield synthesis of RNA using T7 RNA polymerase and plasmid DNA or oligonucleotide templates. Cold Spring Harbor Protocols. 2013. PMID 24184762 DOI: 10.1101/Pdb.Prot078535 |
0.52 |
|
| 2013 |
Turner R, Shefer K, Ares M. Safer one-pot synthesis of the 'SHAPE' reagent 1-methyl-7-nitroisatoic anhydride (1m7). Rna (New York, N.Y.). 19: 1857-63. PMID 24141619 DOI: 10.1261/Rna.042374.113 |
0.398 |
|
| 2013 |
Munding EM, Shiue L, Katzman S, Donohue JP, Ares M. Competition between pre-mRNAs for the splicing machinery drives global regulation of splicing. Molecular Cell. 51: 338-48. PMID 23891561 DOI: 10.1016/J.Molcel.2013.06.012 |
0.512 |
|
| 2013 |
Effenberger KA, Perriman RJ, Bray WM, Lokey RS, Ares M, Jurica MS. A high-throughput splicing assay identifies new classes of inhibitors of human and yeast spliceosomes Journal of Biomolecular Screening. 18: 1110-1120. PMID 23771823 DOI: 10.1177/1087057113493117 |
0.384 |
|
| 2013 |
Ares M. Fragmentation of whole-transcriptome RNA using E. coli RNase III. Cold Spring Harbor Protocols. 2013: 479-81. PMID 23637372 DOI: 10.1101/Pdb.Prot074369 |
0.524 |
|
| 2013 |
Pandit S, Zhou Y, Shiue L, Coutinho-Mansfield G, Li H, Qiu J, Huang J, Yeo GW, Ares M, Fu XD. Genome-wide analysis reveals SR protein cooperation and competition in regulated splicing. Molecular Cell. 50: 223-35. PMID 23562324 DOI: 10.1016/J.Molcel.2013.03.001 |
0.392 |
|
| 2013 |
Hall MP, Nagel RJ, Fagg WS, Shiue L, Cline MS, Perriman RJ, Donohue JP, Ares M. Quaking and PTB control overlapping splicing regulatory networks during muscle cell differentiation. Rna (New York, N.Y.). 19: 627-38. PMID 23525800 DOI: 10.1261/Rna.038422.113 |
0.421 |
|
| 2013 |
Pistoni M, Shiue L, Cline MS, Bortolanza S, Neguembor MV, Xynos A, Ares M, Gabellini D. Rbfox1 downregulation and altered calpain 3 splicing by FRG1 in a mouse model of Facioscapulohumeral muscular dystrophy (FSHD). Plos Genetics. 9: e1003186. PMID 23300487 DOI: 10.1371/Journal.Pgen.1003186 |
0.4 |
|
| 2012 |
Ares M. Isolation of total RNA from yeast cell cultures. Cold Spring Harbor Protocols. 2012: 1082-6. PMID 23028070 DOI: 10.1101/Pdb.Prot071456 |
0.503 |
|
| 2012 |
Beuck C, Qu S, Fagg WS, Ares M, Williamson JR. Structural analysis of the quaking homodimerization interface. Journal of Molecular Biology. 423: 766-81. PMID 22982292 DOI: 10.1016/J.Jmb.2012.08.027 |
0.475 |
|
| 2012 |
Ares M. Bacterial RNA isolation. Cold Spring Harbor Protocols. 2012: 1024-7. PMID 22949721 DOI: 10.1101/Pdb.Prot071068 |
0.423 |
|
| 2012 |
Charizanis K, Lee KY, Batra R, Goodwin M, Zhang C, Yuan Y, Shiue L, Cline M, Scotti MM, Xia G, Kumar A, Ashizawa T, Clark HB, Kimura T, Takahashi MP, ... Ares M, et al. Muscleblind-like 2-mediated alternative splicing in the developing brain and dysregulation in myotonic dystrophy. Neuron. 75: 437-50. PMID 22884328 DOI: 10.1016/J.Neuron.2012.05.029 |
0.422 |
|
| 2012 |
Huelga SC, Vu AQ, Arnold JD, Liang TY, Liu PP, Yan BY, Donohue JP, Shiue L, Hoon S, Brenner S, Ares M, Yeo GW. Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins. Cell Reports. 1: 167-78. PMID 22574288 DOI: 10.1016/J.Celrep.2012.02.001 |
0.504 |
|
| 2012 |
Suenaga K, Lee KY, Nakamori M, Tatsumi Y, Takahashi MP, Fujimura H, Jinnai K, Yoshikawa H, Du H, Ares M, Swanson MS, Kimura T. Muscleblind-like 1 knockout mice reveal novel splicing defects in the myotonic dystrophy brain. Plos One. 7: e33218. PMID 22427994 DOI: 10.1371/Journal.Pone.0033218 |
0.396 |
|
| 2012 |
Gehman LT, Meera P, Stoilov P, Shiue L, O'Brien JE, Meisler MH, Ares M, Otis TS, Black DL. The splicing regulator Rbfox2 is required for both cerebellar development and mature motor function. Genes & Development. 26: 445-60. PMID 22357600 DOI: 10.1101/Gad.182477.111 |
0.398 |
|
| 2011 |
Perriman RJ, Ares M. Alternative splicing variability: exactly how similar are two identical cells? Molecular Systems Biology. 7: 505. PMID 21734644 DOI: 10.1038/Msb.2011.44 |
0.387 |
|
| 2011 |
Gehman LT, Stoilov P, Maguire J, Damianov A, Lin CH, Shiue L, Ares M, Mody I, Black DL. The splicing regulator Rbfox1 (A2BP1) controls neuronal excitation in the mammalian brain. Nature Genetics. 43: 706-11. PMID 21623373 DOI: 10.1038/Ng.841 |
0.351 |
|
| 2011 |
Mishra SK, Ammon T, Popowicz GM, Krajewski M, Nagel RJ, Ares M, Holak TA, Jentsch S. Role of the ubiquitin-like protein Hub1 in splice-site usage and alternative splicing. Nature. 474: 173-8. PMID 21614000 DOI: 10.1038/Nature10143 |
0.47 |
|
| 2010 |
Munding EM, Igel AH, Shiue L, Dorighi KM, Treviño LR, Ares M. Integration of a splicing regulatory network within the meiotic gene expression program of Saccharomyces cerevisiae. Genes & Development. 24: 2693-704. PMID 21123654 DOI: 10.1101/Gad.1977410 |
0.349 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Enrichment of poly(A)+ mRNA using immobilized oligo(dT). Cold Spring Harbor Protocols. 2010: pdb.prot5454. PMID 20647358 DOI: 10.1101/Pdb.Prot5454 |
0.443 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Guidelines for the use of RNA purification kits. Cold Spring Harbor Protocols. 2010: pdb.ip79. PMID 20647349 DOI: 10.1101/Pdb.Ip79 |
0.356 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Determining the yield and quality of purified RNA. Cold Spring Harbor Protocols. 2010: pdb.top82. PMID 20516190 DOI: 10.1101/Pdb.Top82 |
0.491 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Nondenaturing agarose gel electrophoresis of RNA. Cold Spring Harbor Protocols. 2010: pdb.prot5445. PMID 20516183 DOI: 10.1101/Pdb.Prot5445 |
0.511 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Polyacrylamide gel electrophoresis of RNA. Cold Spring Harbor Protocols. 2010: pdb.prot5444. PMID 20516182 DOI: 10.1101/Pdb.Prot5444 |
0.485 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Removal of DNA from RNA. Cold Spring Harbor Protocols. 2010: pdb.prot5443. PMID 20516181 DOI: 10.1101/Pdb.Prot5443 |
0.426 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Removal of ribosomal subunits (and rRNA) from cytoplasmic extracts before solubilization with SDS and deproteinization. Cold Spring Harbor Protocols. 2010: pdb.prot5442. PMID 20516180 DOI: 10.1101/Pdb.Prot5442 |
0.525 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Preparation of cytoplasmic and nuclear RNA from tissue culture cells. Cold Spring Harbor Protocols. 2010: pdb.prot5441. PMID 20516179 DOI: 10.1101/Pdb.Prot5441 |
0.344 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Ethanol precipitation of RNA and the use of carriers. Cold Spring Harbor Protocols. 2010: pdb.prot5440. PMID 20516178 DOI: 10.1101/Pdb.Prot5440 |
0.458 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Purification of RNA using TRIzol (TRI reagent). Cold Spring Harbor Protocols. 2010: pdb.prot5439. PMID 20516177 DOI: 10.1101/Pdb.Prot5439 |
0.503 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Purification of RNA by SDS solubilization and phenol extraction. Cold Spring Harbor Protocols. 2010: pdb.prot5438. PMID 20516176 DOI: 10.1101/Pdb.Prot5438 |
0.45 |
|
| 2010 |
Perriman R, Ares M. Invariant U2 snRNA nucleotides form a stem loop to recognize the intron early in splicing. Molecular Cell. 38: 416-27. PMID 20471947 DOI: 10.1016/J.Molcel.2010.02.036 |
0.516 |
|
| 2010 |
Du H, Cline MS, Osborne RJ, Tuttle DL, Clark TA, Donohue JP, Hall MP, Shiue L, Swanson MS, Thornton CA, Ares M. Aberrant alternative splicing and extracellular matrix gene expression in mouse models of myotonic dystrophy. Nature Structural & Molecular Biology. 17: 187-93. PMID 20098426 DOI: 10.1038/Nsmb.1720 |
0.546 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Determining the yield and quality of purified RNA Cold Spring Harbor Protocols. 5. DOI: 10.1101/pdb.top82 |
0.336 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Nondenaturing agarose gel electrophoresis of RNA Cold Spring Harbor Protocols. 5. DOI: 10.1101/pdb.prot5445 |
0.398 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Polyacrylamide gel electrophoresis of RNA Cold Spring Harbor Protocols. 5. DOI: 10.1101/pdb.prot5444 |
0.391 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Removal of DNA from RNA Cold Spring Harbor Protocols. 5. DOI: 10.1101/pdb.prot5443 |
0.331 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Preparation of cytoplasmic and nuclear RNA from tissue culture cells Cold Spring Harbor Protocols. 5. DOI: 10.1101/pdb.prot5441 |
0.334 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Purification of RNA using TRIzol (TRI Reagent) Cold Spring Harbor Protocols. 5. DOI: 10.1101/pdb.prot5439 |
0.419 |
|
| 2010 |
Rio DC, Ares M, Hannon GJ, Nilsen TW. Purification of RNA by SDS solubilization and phenol extraction Cold Spring Harbor Protocols. 5. DOI: 10.1101/pdb.prot5438 |
0.341 |
|
| 2010 |
Rio DC, Ares MJ, Hannon GJ, Nilsen TW. Guidelines for the use of RNA purification kits Cold Spring Harbor Protocols. 5. DOI: 10.1101/pdb.ip79 |
0.389 |
|
| 2009 |
Chawla G, Lin CH, Han A, Shiue L, Ares M, Black DL. Sam68 regulates a set of alternatively spliced exons during neurogenesis. Molecular and Cellular Biology. 29: 201-13. PMID 18936165 DOI: 10.1128/Mcb.01349-08 |
0.552 |
|
| 2008 |
Ares M, Chakrabarti K. Stuttering against marginotomy. Nature Structural & Molecular Biology. 15: 18-9. PMID 18176550 DOI: 10.1038/Nsmb0108-18 |
0.302 |
|
| 2008 |
Lauriat TL, Shiue L, Haroutunian V, Verbitsky M, Ares M, Ospina L, McInnes LA. Developmental expression profile of quaking, a candidate gene for schizophrenia, and its target genes in human prefrontal cortex and hippocampus shows regional specificity. Journal of Neuroscience Research. 86: 785-96. PMID 17918747 DOI: 10.1002/Jnr.21534 |
0.313 |
|
| 2007 |
Chakrabarti K, Pearson M, Grate L, Sterne-Weiler T, Deans J, Donohue JP, Ares M. Structural RNAs of known and unknown function identified in malaria parasites by comparative genomics and RNA analysis. Rna (New York, N.Y.). 13: 1923-39. PMID 17901154 DOI: 10.1261/Rna.751807 |
0.534 |
|
| 2007 |
Boutz PL, Stoilov P, Li Q, Lin CH, Chawla G, Ostrow K, Shiue L, Ares M, Black DL. A post-transcriptional regulatory switch in polypyrimidine tract-binding proteins reprograms alternative splicing in developing neurons. Genes & Development. 21: 1636-52. PMID 17606642 DOI: 10.1101/Gad.1558107 |
0.392 |
|
| 2007 |
Perriman RJ, Ares M. Rearrangement of competing U2 RNA helices within the spliceosome promotes multiple steps in splicing. Genes & Development. 21: 811-20. PMID 17403781 DOI: 10.1101/Gad.1524307 |
0.439 |
|
| 2007 |
Ni JZ, Grate L, Donohue JP, Preston C, Nobida N, O'Brien G, Shiue L, Clark TA, Blume JE, Ares M. Ultraconserved elements are associated with homeostatic control of splicing regulators by alternative splicing and nonsense-mediated decay. Genes & Development. 21: 708-18. PMID 17369403 DOI: 10.1101/Gad.1525507 |
0.534 |
|
| 2007 |
Ares M. Sing the genome electric: excited cells adjust their splicing. Plos Biology. 5: e55. PMID 17298182 DOI: 10.1371/Journal.Pbio.0050055 |
0.487 |
|
| 2006 |
Pollard KS, Salama SR, Lambert N, Lambot MA, Coppens S, Pedersen JS, Katzman S, King B, Onodera C, Siepel A, Kern AD, Dehay C, Igel H, Ares M, Vanderhaeghen P, et al. An RNA gene expressed during cortical development evolved rapidly in humans. Nature. 443: 167-72. PMID 16915236 DOI: 10.1038/Nature05113 |
0.361 |
|
| 2006 |
Li C, Kato M, Shiue L, Shively JE, Ares M, Lin RJ. Cell type and culture condition-dependent alternative splicing in human breast cancer cells revealed by splicing-sensitive microarrays. Cancer Research. 66: 1990-9. PMID 16488998 DOI: 10.1158/0008-5472.Can-05-2593 |
0.336 |
|
| 2006 |
Davis CA, Ares M. Accumulation of unstable promoter-associated transcripts upon loss of the nuclear exosome subunit Rrp6p in Saccharomyces cerevisiae. Proceedings of the National Academy of Sciences of the United States of America. 103: 3262-7. PMID 16484372 DOI: 10.1073/Pnas.0507783103 |
0.558 |
|
| 2006 |
Sugnet CW, Srinivasan K, Clark TA, O'Brien G, Cline MS, Wang H, Williams A, Kulp D, Blume JE, Haussler D, Ares M. Unusual intron conservation near tissue-regulated exons found by splicing microarrays. Plos Computational Biology. 2: e4. PMID 16424921 DOI: 10.1371/Journal.Pcbi.0020004 |
0.439 |
|
| 2006 |
Combs DJ, Nagel RJ, Ares M, Stevens SW. Prp43p is a DEAH-box spliceosome disassembly factor essential for ribosome biogenesis. Molecular and Cellular Biology. 26: 523-34. PMID 16382144 DOI: 10.1128/Mcb.26.2.523-534.2006 |
0.481 |
|
| 2005 |
Srinivasan K, Shiue L, Hayes JD, Centers R, Fitzwater S, Loewen R, Edmondson LR, Bryant J, Smith M, Rommelfanger C, Welch V, Clark TA, Sugnet CW, Howe KJ, Mandel-Gutfreund Y, Ares M, et al. Detection and measurement of alternative splicing using splicing-sensitive microarrays. Methods (San Diego, Calif.). 37: 345-59. PMID 16314264 DOI: 10.1016/J.Ymeth.2005.09.007 |
0.494 |
|
| 2005 |
Burckin T, Nagel R, Mandel-Gutfreund Y, Shiue L, Clark TA, Chong JL, Chang TH, Squazzo S, Hartzog G, Ares M. Exploring functional relationships between components of the gene expression machinery. Nature Structural & Molecular Biology. 12: 175-82. PMID 15702072 DOI: 10.1038/Nsmb891 |
0.403 |
|
| 2005 |
Ares M, Proudfoot NJ. The Spanish connection: Transcription and mRNA processing get even closer Cell. 120: 163-166. PMID 15680322 DOI: 10.1016/J.Cell.2005.01.002 |
0.482 |
|
| 2005 |
Robertson MP, Igel H, Baertsch R, Haussler D, Ares M, Scott WG. The structure of a rigorously conserved RNA element within the SARS virus genome. Plos Biology. 3: e5. PMID 15630477 DOI: 10.1371/Journal.Pbio.0030005 |
0.507 |
|
| 2004 |
Schattner P, Decatur WA, Davis CA, Ares M, Fournier MJ, Lowe TM. Genome-wide searching for pseudouridylation guide snoRNAs: analysis of the Saccharomyces cerevisiae genome. Nucleic Acids Research. 32: 4281-96. PMID 15306656 DOI: 10.1093/Nar/Gkh768 |
0.498 |
|
| 2004 |
Leulliot N, Quevillon-Cheruel S, Graille M, van Tilbeurgh H, Leeper TC, Godin KS, Edwards TE, Sigurdsson ST, Rozenkrants N, Nagel RJ, Ares M, Varani G. A new alpha-helical extension promotes RNA binding by the dsRBD of Rnt1p RNAse III. The Embo Journal. 23: 2468-77. PMID 15192703 DOI: 10.1038/Sj.Emboj.7600260 |
0.499 |
|
| 2004 |
Spingola M, Armisen J, Ares M. Mer1p is a modular splicing factor whose function depends on the conserved U2 snRNP protein Snu17p. Nucleic Acids Research. 32: 1242-50. PMID 14973223 DOI: 10.1093/Nar/Gkh281 |
0.459 |
|
| 2003 |
Perriman R, Barta I, Voeltz GK, Abelson J, Ares M. ATP requirement for Prp5p function is determined by Cus2p and the structure of U2 small nuclear RNA. Proceedings of the National Academy of Sciences of the United States of America. 100: 13857-62. PMID 14610285 DOI: 10.1073/Pnas.2036312100 |
0.431 |
|
| 2003 |
Howe KJ, Kane CM, Ares M. Perturbation of transcription elongation influences the fidelity of internal exon inclusion in Saccharomyces cerevisiae. Rna (New York, N.Y.). 9: 993-1006. PMID 12869710 DOI: 10.1261/Rna.5390803 |
0.479 |
|
| 2003 |
Wang H, Hubbell E, Hu JS, Mei G, Cline M, Lu G, Clark T, Siani-Rose MA, Ares M, Kulp DC, Haussler D. Gene structure-based splice variant deconvolution using a microarray platform. Bioinformatics (Oxford, England). 19: i315-22. PMID 12855476 DOI: 10.1093/Bioinformatics/Btg1044 |
0.379 |
|
| 2002 |
Grate L, Ares M. Searching yeast intron data at Ares lab Web site. Methods in Enzymology. 350: 380-92. PMID 12073325 DOI: 10.1016/S0076-6879(02)50975-7 |
0.344 |
|
| 2002 |
Clark TA, Sugnet CW, Ares M. Genomewide analysis of mRNA processing in yeast using splicing-specific microarrays. Science (New York, N.Y.). 296: 907-10. PMID 11988574 DOI: 10.1126/Science.1069415 |
0.537 |
|
| 2002 |
Burns CG, Ohi R, Mehta S, O'Toole ET, Winey M, Clark TA, Sugnet CW, Ares M, Gould KL. Removal of a single alpha-tubulin gene intron suppresses cell cycle arrest phenotypes of splicing factor mutations in Saccharomyces cerevisiae. Molecular and Cellular Biology. 22: 801-15. PMID 11784857 DOI: 10.1128/Mcb.22.3.801-815.2002 |
0.39 |
|
| 2000 |
Spingola M, Ares M. A yeast intronic splicing enhancer and Nam8p are required for Mer1p-activated splicing. Molecular Cell. 6: 329-38. PMID 10983980 DOI: 10.1016/S1097-2765(00)00033-2 |
0.462 |
|
| 2000 |
Nagel R, Ares M. Substrate recognition by a eukaryotic RNase III: the double-stranded RNA-binding domain of Rnt1p selectively binds RNA containing a 5'-AGNN-3' tetraloop. Rna (New York, N.Y.). 6: 1142-56. PMID 10943893 DOI: 10.1017/S1355838200000431 |
0.464 |
|
| 2000 |
Wells SE, Hughes JM, Igel AH, Ares M. Use of dimethyl sulfate to probe RNA structure in vivo. Methods in Enzymology. 318: 479-93. PMID 10890007 DOI: 10.1016/S0076-6879(00)18071-1 |
0.472 |
|
| 2000 |
Davis CA, Grate L, Spingola M, Ares M. Test of intron predictions reveals novel splice sites, alternatively spliced mRNAs and new introns in meiotically regulated genes of yeast. Nucleic Acids Research. 28: 1700-6. PMID 10734188 DOI: 10.1093/Nar/28.8.1700 |
0.407 |
|
| 2000 |
Pauling MH, McPheeters DS, Ares M. Functional Cus1p is found with Hsh155p in a multiprotein splicing factor associated with U2 snRNA. Molecular and Cellular Biology. 20: 2176-85. PMID 10688664 DOI: 10.1128/Mcb.20.6.2176-2185.2000 |
0.361 |
|
| 2000 |
Perriman R, Ares M. ATP can be dispensable for prespliceosome formation in yeast Genes & Development. 14: 97-107. DOI: 10.1101/Gad.14.1.97 |
0.378 |
|
| 1999 |
Ares M, Grate L, Pauling MH. A handful of intron-containing genes produces the lion's share of yeast mRNA. Rna. 5: 1138-1139. PMID 10496214 DOI: 10.1017/S1355838299991379 |
0.34 |
|
| 1999 |
Spingola M, Grate L, Haussler D, Ares M. Genome-wide bioinformatic and molecular analysis of introns in Saccharomyces cerevisiae. Rna (New York, N.Y.). 5: 221-34. PMID 10024174 DOI: 10.1017/S1355838299981682 |
0.464 |
|
| 1998 |
Perriman R, Ares M. Circular mRNA can direct translation of extremely long repeating-sequence proteins in vivo. Rna (New York, N.Y.). 4: 1047-54. PMID 9740124 DOI: 10.1017/S135583829898061X |
0.399 |
|
| 1998 |
Yan D, Perriman R, Igel H, Howe KJ, Neville M, Ares M. CUS2, a yeast homolog of human Tat-SF1, rescues function of misfolded U2 through an unusual RNA recognition motif Molecular and Cellular Biology. 18: 5000-5009. PMID 9710584 DOI: 10.1128/Mcb.18.9.5000 |
0.535 |
|
| 1998 |
Elela SA, Ares M. Depletion of yeast RNase III blocks correct U2 3′ end formation and results in polyadenylated but functional U2 snRNA The Embo Journal. 17: 3738-3746. PMID 9649443 DOI: 10.1093/Emboj/17.13.3738 |
0.481 |
|
| 1997 |
Howe KJ, Ares M. Intron self-complementarity enforces exon inclusion in a yeast pre-mRNA Proceedings of the National Academy of Sciences of the United States of America. 94: 12467-12472. PMID 9356473 DOI: 10.1073/Pnas.94.23.12467 |
0.531 |
|
| 1997 |
Chanfreau G, Elela SA, Ares M, Guthrie C. Alternative 3'-end processing of U5 snRNA by RNase III Genes and Development. 11: 2741-2751. PMID 9334335 DOI: 10.1101/Gad.11.20.2741 |
0.501 |
|
| 1996 |
Yan D, Ares M. Invariant U2 RNA sequences bordering the branchpoint recognition region are essential for interaction with yeast SF3a and SF3b subunits. Molecular and Cellular Biology. 16: 818-28. PMID 8622683 DOI: 10.1128/Mcb.16.3.818 |
0.466 |
|
| 1996 |
Elela SA, Igel H, Ares M. RNase III cleaves eukaryotic preribosomal RNA at a U3 snoRNP-dependent site. Cell. 85: 115-24. PMID 8620530 DOI: 10.1016/S0092-8674(00)81087-9 |
0.464 |
|
| 1996 |
Wells SE, Neville M, Haynes M, Wang J, Igel H, Ares M. CUS1, a suppressor of cold-sensitive U2 snRNA mutations, is a novel yeast splicing factor homologous to human SAP 145. Genes & Development. 10: 220-32. PMID 8566755 DOI: 10.1101/Gad.10.2.220 |
0.416 |
|
| 1995 |
Ares M, Weiser B. Rearrangement of snRNA structure during assembly and function of the spliceosome. Progress in Nucleic Acid Research and Molecular Biology. 50: 131-59. PMID 7754032 DOI: 10.1016/S0079-6603(08)60813-2 |
0.49 |
|
| 1994 |
Zavanelli MI, Britton JS, Igel AH, Ares M. Mutations in an essential U2 small nuclear RNA structure cause cold-sensitive U2 small nuclear ribonucleoprotein function by favoring competing alternative U2 RNA structures. Molecular and Cellular Biology. 14: 1689-1697. PMID 8114704 DOI: 10.1128/mcb.14.3.1689-1697.1994 |
0.498 |
|
| 1994 |
Wells SE, Ares M. Interactions between highly conserved U2 small nuclear RNA structures and Prp5p, Prp9p, Prp11p, and Prp21p proteins are required to ensure integrity of the U2 small nuclear ribonucleoprotein in Saccharomyces cerevisiae. Molecular and Cellular Biology. 14: 6337-49. PMID 8065365 DOI: 10.1128/mcb.14.9.6337-6349.1994 |
0.501 |
|
| 1994 |
Ford E, Ares M. Synthesis of circular RNA in bacteria and yeast using RNA cyclase ribozymes derived from a group I intron of phage T4. Proceedings of the National Academy of Sciences of the United States of America. 91: 3117-3121. PMID 7512723 DOI: 10.1073/Pnas.91.8.3117 |
0.565 |
|
| 1992 |
Zavanelli MI, Ares M. Efficient association of U2 snRNPs with pre-mRNA requires an essential U2 RNA structural element. Genes & Development. 5: 2521-33. PMID 1752442 DOI: 10.1101/Gad.5.12B.2521 |
0.503 |
|
| 1991 |
Ares M, Igel AH. Lethal and temperature-sensitive mutations and their suppressors identify an essential structural element in U2 small nuclear RNA. Genes & Development. 4: 2132-45. PMID 2269428 DOI: 10.1101/Gad.4.12A.2132 |
0.453 |
|
| 1991 |
Miraglia L, Seiwert S, Igel AH, Ares M. Limited functional equivalence of phylogenetic variation in small nuclear RNA: yeast U2 RNA with altered branchpoint complementarity inhibits splicing and produces a dominant lethal phenotype. Proceedings of the National Academy of Sciences of the United States of America. 88: 7061-7065. PMID 1871121 DOI: 10.1073/Pnas.88.16.7061 |
0.538 |
|
| 1991 |
Hughes JMX, Ares M. Depletion of U3 small nucleolar RNA inhibits cleavage in the 5' external transcribed spacer of yeast pre-ribosomal RNA and impairs formation of 18S ribosomal RNA. The Embo Journal. 10: 4231-4239. DOI: 10.1002/J.1460-2075.1991.Tb05001.X |
0.534 |
|
| 1990 |
Ares M, Igel AH. Mutations define essential and nonessential U2 RNA structures. Molecular Biology Reports. 14: 131-2. PMID 2194105 DOI: 10.1007/BF00360444 |
0.366 |
|
| 1988 |
Igel AH, Ares M. Internal sequences that distinguish yeast from metazoan U2 snRNA are unnecessary for pre-mRNA splicing. Nature. 334: 450-3. PMID 3043228 DOI: 10.1038/334450A0 |
0.553 |
|
| 1987 |
Gerbi SA, Jeppesen C, Stebbins-Boaz B, Ares M. Evolution of eukaryotic rRNA: constraints imposed by RNA interactions. Cold Spring Harbor Symposia On Quantitative Biology. 52: 709-19. PMID 3454284 DOI: 10.1101/Sqb.1987.052.01.080 |
0.48 |
|
| 1987 |
Ares M, Chung JS, Giglio L, Weiner AM. Distinct factors with Sp1 and NF-A specificities bind to adjacent functional elements of the human U2 snRNA gene enhancer Genes & Development. 1: 808-817. PMID 3428599 DOI: 10.1101/Gad.1.8.808 |
0.398 |
|
| 1986 |
Ares M. U2 RNA from yeast is unexpectedly large and contains homology to vertebrate U4, U5, and U6 small nuclear RNAs. Cell. 47: 49-59. PMID 3530502 DOI: 10.1016/0092-8674(86)90365-X |
0.552 |
|
| 1986 |
Mangin M, Ares M, Weiner AM. Human U2 small nuclear RNA genes contain an upstream enhancer. The Embo Journal. 5: 987-995. DOI: 10.1002/J.1460-2075.1986.Tb04313.X |
0.434 |
|
| 1985 |
Lindgren V, Ares M, Weiner AM, Francke U. Human genes for U2 small nuclear RNA map to a major adenovirus 12 modification site on chromosome 17 Nature. 314: 115-116. PMID 2579339 DOI: 10.1038/314115A0 |
0.422 |
|
| 1985 |
Ares M, Mangin M, Weiner AM. Orientation-dependent transcriptional activator upstream of a human U2 snRNA gene Molecular and Cellular Biology. 5: 1560-1570. PMID 2410771 DOI: 10.1128/mcb.5.7.1560-1570.1985 |
0.447 |
|
| 1985 |
Yuo CY, Ares M, Weiner AM. Sequences required for 3′ end formation of human U2 small nuclear RNA Cell. 42: 193-202. PMID 2410138 DOI: 10.1016/S0092-8674(85)80115-X |
0.513 |
|
| 1985 |
Mangin M, Ares M, Weiner AM. U1 small nuclear RNA genes are subject to dosage compensation in mouse cells Science. 229: 272-275. PMID 2409601 DOI: 10.1126/Science.2409601 |
0.511 |
|
| 1985 |
Ares M, Mangin M, Weiner AM. Orientation-dependent transcriptional activator upstream of a human U2 snRNA gene. Molecular and Cellular Biology. 5: 1560-1570. DOI: 10.1128/MCB.5.7.1560 |
0.346 |
|
| 1983 |
Dallman T, Ares M, Howell SH. Analysis of transcription during the cell cycle in toluenized Chlamydomonas reinhardi cells. Molecular and Cellular Biology. 3: 1537-9. PMID 6621539 DOI: 10.1128/Mcb.3.8.1537 |
0.66 |
|
| 1982 |
Ares M, Howell SH. Cell cycle stage-specific accumulation of mRNAs encoding tubulin and other polypeptides in Chlamydomonas. Proceedings of the National Academy of Sciences of the United States of America. 79: 5577-81. PMID 6182565 DOI: 10.1073/Pnas.79.18.5577 |
0.653 |
|
| Show low-probability matches. |