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Emad Bahrami-Samani
Researcher at University of Southern California
Publications - 14
Citations - 684
Emad Bahrami-Samani is an academic researcher from University of Southern California. The author has contributed to research in topics: RNA splicing & Alternative splicing. The author has an hindex of 10, co-authored 13 publications receiving 545 citations. Previous affiliations of Emad Bahrami-Samani include University of California, Los Angeles & Children's Hospital of Philadelphia.
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Journal ArticleDOI
Site identification in high-throughput RNA–protein interaction data
Philip J. Uren,Emad Bahrami-Samani,Suzanne C. Burns,Mei Qiao,Fedor V. Karginov,Emily Hodges,Gregory J. Hannon,Jeremy R. Sanford,Luiz O. F. Penalva,Andrew D. Smith +9 more
TL;DR: This work introduces a method for site identification which can be applied on all variations of CLIP and RIP-seq technologies, and accurately models the underlying read-count distributions, and allows external covariates, such as transcript abundance, to inform the site identification process.
Journal ArticleDOI
Rbfox Proteins Regulate Splicing as Part of a Large Multiprotein Complex LASR
Andrey Damianov,Yi Ying,Chia-Ho Lin,Ji-Ann Lee,Diana Tran,Ajay A. Vashisht,Emad Bahrami-Samani,Yi Xing,Kelsey C. Martin,James A. Wohlschlegel,Douglas L. Black +10 more
TL;DR: It is shown that Rbfox proteins bind RNA with a defined set of cofactors and affect a broader set of exons than previously recognized, which has implications for deciphering the regulatory codes controlling splicing networks.
Journal ArticleDOI
High-throughput analyses of hnRNP H1 dissects its multi-functional aspect.
Philip J. Uren,Emad Bahrami-Samani,Patrícia R. Araújo,Christine Vogel,Mei Qiao,Suzanne C. Burns,Andrew D. Smith,Luiz O. F. Penalva +7 more
TL;DR: Analysis of the target transcripts and binding sites indicates that hnRNP H1s involvement insplicing is 2-fold: it directly affects a substantial number of splicing events, but also regulates the expression of major components of the splicing machinery and other RBPs with known roles in splicing regulation.
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RNA-Binding Protein Musashi1 Is a Central Regulator of Adhesion Pathways in Glioblastoma
Philip J. Uren,Dat T. Vo,Patrícia R. Araújo,Rebecca Pötschke,Suzanne C. Burns,Emad Bahrami-Samani,Mei Qiao,Raquel de Sousa Abreu,Helder I. Nakaya,Helder I. Nakaya,Bruna R. Correa,Caspar D. Kühnöl,Jernej Ule,Jennifer L. Martindale,Kotb Abdelmohsen,Myriam Gorospe,Andrew D. Smith,Luiz O. F. Penalva +17 more
TL;DR: It is confirmed that the conserved RNA-binding protein Musashi1 has a preference for UAG sequences contained in a particular structural context, especially in 3′ untranslated regions, which indicates potentially new roles for MSI1 in glioblastoma.
Journal ArticleDOI
Leveraging cross-link modification events in CLIP-seq for motif discovery
TL;DR: The results indicate that using both secondary structure and cross-link modifications can greatly improve motif discovery on CLIP-seq data, and provide insight into the balance between sequence- and structure-specificity struck by RBP binding.