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Insights into the connection between cancer and alternative splicing.
Kim E, Goren A, Ast G. Kim E, et al. Trends Genet. 2008 Jan;24(1):7-10. doi: 10.1016/j.tig.2007.10.001. Epub 2007 Dec 3. Trends Genet. 2008. PMID: 18054115
We further show evidence suggesting that the lower levels of alternative splicing in cancerous tissues might be a result of disruption of splicing regulatory proteins....
We further show evidence suggesting that the lower levels of alternative splicing in cancerous tissues might be a result of disruptio …
Differential GC content between exons and introns establishes distinct strategies of splice-site recognition.
Amit M, Donyo M, Hollander D, Goren A, Kim E, Gelfman S, Lev-Maor G, Burstein D, Schwartz S, Postolsky B, Pupko T, Ast G. Amit M, et al. Cell Rep. 2012 May 31;1(5):543-56. doi: 10.1016/j.celrep.2012.03.013. Epub 2012 May 3. Cell Rep. 2012. PMID: 22832277
During evolution segments of homeothermic genomes underwent a GC content increase. Our analyses reveal that two exon-intron architectures have evolved from an ancestral state of low GC content exons flanked by short introns with a lower GC content. One group underwe …
During evolution segments of homeothermic genomes underwent a GC content increase. Our analyses reveal that two exon-intron architect …
Overlapping splicing regulatory motifs--combinatorial effects on splicing.
Goren A, Kim E, Amit M, Vaknin K, Kfir N, Ram O, Ast G. Goren A, et al. Nucleic Acids Res. 2010 Jun;38(10):3318-27. doi: 10.1093/nar/gkq005. Epub 2010 Jan 27. Nucleic Acids Res. 2010. PMID: 20110253 Free PMC article.
Examination of these overlapping motifs revealed a unique spatial distribution, especially near splice donor sites of exons with weak splice donor sites. ...Finally, over-abundant motif overlaps were experimentally tested in a reporting minigene revealing that overl …
Examination of these overlapping motifs revealed a unique spatial distribution, especially near splice donor sites of exons with weak …
Intronic Alus influence alternative splicing.
Lev-Maor G, Ram O, Kim E, Sela N, Goren A, Levanon EY, Ast G. Lev-Maor G, et al. PLoS Genet. 2008 Sep 26;4(9):e1000204. doi: 10.1371/journal.pgen.1000204. PLoS Genet. 2008. PMID: 18818740 Free PMC article.
A large fraction of Alus are found in intronic sequences, implying extensive Alu-Alu dsRNA formation in mRNA precursors. Yet, the effect of these intronic Alus on splicing of the flanking exons is largely unknown. ...Indeed, we demonstrate experimentally that two Alu eleme
A large fraction of Alus are found in intronic sequences, implying extensive Alu-Alu dsRNA formation in mRNA precursors. Yet, the eff
Alternative splicing and disease.
Kim E, Goren A, Ast G. Kim E, et al. RNA Biol. 2008 Jan-Mar;5(1):17-9. doi: 10.4161/rna.5.1.5944. Epub 2008 Mar 22. RNA Biol. 2008. PMID: 18388487
Splicing is a molecular mechanism, by which introns are removed from an mRNA precursor and exons are ligated to form a mature mRNA. ...It may be that splicing silencers play a more prominent role in alternative splicing regulation than previously anticipated. …
Splicing is a molecular mechanism, by which introns are removed from an mRNA precursor and exons are ligated to form a mature …
Alternative approach to a heavy weight problem.
Goren A, Kim E, Amit M, Bochner R, Lev-Maor G, Ahituv N, Ast G. Goren A, et al. Genome Res. 2008 Feb;18(2):214-20. doi: 10.1101/gr.6661308. Epub 2007 Dec 20. Genome Res. 2008. PMID: 18096750 Free PMC article.
Obesity is reaching epidemic proportions in developed countries and represents a significant risk factor for hypertension, heart disease, diabetes, and dyslipidemia. ...Using ex vivo assays, we tested a few representative variants and show that they indeed affect sp …
Obesity is reaching epidemic proportions in developed countries and represents a significant risk factor for hypertension, heart dise …
Alternative splicing: current perspectives.
Kim E, Goren A, Ast G. Kim E, et al. Bioessays. 2008 Jan;30(1):38-47. doi: 10.1002/bies.20692. Bioessays. 2008. PMID: 18081010 Review.
Alternative splicing is a well-characterized mechanism by which multiple transcripts are generated from a single mRNA precursor. ...
Alternative splicing is a well-characterized mechanism by which multiple transcripts are generated from a single mRNA precurso …
Comparative analysis identifies exonic splicing regulatory sequences--The complex definition of enhancers and silencers.
Goren A, Ram O, Amit M, Keren H, Lev-Maor G, Vig I, Pupko T, Ast G. Goren A, et al. Mol Cell. 2006 Jun 23;22(6):769-81. doi: 10.1016/j.molcel.2006.05.008. Mol Cell. 2006. PMID: 16793546
A computational method based on the conservation level of wobble positions and the overabundance of sequence motifs between 46,103 human and mouse orthologous exons was developed, identifying 285 putative ESRs. ...ESRs that are abundant in those subgroups show a dif
A computational method based on the conservation level of wobble positions and the overabundance of sequence motifs between 46,103 hu
The "alternative" choice of constitutive exons throughout evolution.
Lev-Maor G, Goren A, Sela N, Kim E, Keren H, Doron-Faigenboim A, Leibman-Barak S, Pupko T, Ast G. Lev-Maor G, et al. PLoS Genet. 2007 Nov;3(11):e203. doi: 10.1371/journal.pgen.0030203. PLoS Genet. 2007. PMID: 18020709 Free PMC article.
We compiled a dataset of orthologous exons from human and mouse that are constitutively spliced in one species but alternatively spliced in the other. ...
We compiled a dataset of orthologous exons from human and mouse that are constitutively spliced in one species but alternatively spli …
TEs or not TEs? That is the evolutionary question.
Vaknin K, Goren A, Ast G. Vaknin K, et al. J Biol. 2009 Oct 23;8(9):83. doi: 10.1186/jbiol188. J Biol. 2009. PMID: 19863763 Free PMC article.
Transposable elements (TEs) have contributed a wide range of functional sequences to their host genomes. A recent paper in BMC Molecular Biology discusses the creation of new transcripts by transposable element insertion upstream of retrocopies and the involvement o …
Transposable elements (TEs) have contributed a wide range of functional sequences to their host genomes. A recent paper in BMC …
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