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GoT-Splice protocol for multi-omics profiling of gene expression, cell-surface proteins, mutational status, and RNA splicing in human cells
Saravanan Ganesan, Mariela Cortés-López, Ariel D Swett, Xiaoguang Dai, Scott Hickey, Paulina Chamely, Allegra G Hawkins, Sissel Juul, Dan A Landau, Federico Gaiti
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SON Is an Essential m6A Target for Hematopoietic Stem Cell Fate
Stem cells regulate their self-renewal and differentiation fate outcomes through both symmetric and asymmetric divisions. m6A RNA …
Hanzhi Luo, Mariela Cortés-López, Cyrus L. Tam, Michael Xiao, Isaac Wakiro, Karen L. Chu, Aspen Pierson, Mandy Chan, Kathryn Chang, Xuejing Yang, Daniel Fecko, Grace Han, Eun-Young Erin Ahn, Quaid D. Morris, Dan A. Landau, Michael G. Kharas
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Single-cell multi-omics defines the cell-type-specific impact of splicing aberrations in human hematopoietic clonal outgrowths
RNA splicing factors are recurrently mutated in clonal blood disorders, but the impact of dysregulated splicing in hematopoiesis …
Mariela Cortés-López, Paulina Chamely, Allegra G Hawkins, Robert F Stanley, Ariel D Swett, Saravanan Ganesan, Tarek H Mouhieddine, Xiaoguang Dai, Lloyd Kluegel, Celine Chen, Kiran Batta, Nili Furer, Rahul S Vedula, John Beaulaurier, Alexander W Drong, Scott Hickey, Neville Dusaj, Gavriel Mullokandov, Adam M Stasiw, Jiayu Su, Ronan Chaligné, Sissel Juul, Eoghan Harrington, David A Knowles, Catherine J Potenski, Daniel H Wiseman, Amos Tanay, Liran Shlush, Robert C Lindsley, Irene M Ghobrial, Justin Taylor, Omar Abdel-Wahab, Federico Gaiti, Dan A Landau
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Analysis of RBP expression and binding sites identifies PTBP1 as a regulator of CD19 expression in B-ALL
Despite massive improvements in the treatment of B-ALL through CART-19 immunotherapy, a large number of patients suffer a relapse due …
Nicole Ziegler, Mariela Cortés-López, Francesca Alt, Maximilian Sprang, Arsenij Ustjanzew, Nadine Lehmann, Khalifa El Malki, Arthur Wingerter, Alexandra Russo, Olaf Beck, Sebastian Attig, Lea Roth, Julian König, Claudia Paret, Jörg Faber
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High-throughput mutagenesis identifies mutations and RNA-binding proteins controlling CD19 splicing and CART-19 therapy resistance
Following CART-19 immunotherapy for B-cell acute lymphoblastic leukaemia (B-ALL), many patients relapse due to loss of the cognate CD19 …
Mariela Cortés-López, Laura Schulz, Mihaela Enculescu, Claudia Paret, Bea Spiekermann, Mathieu Quesnel-Vallières, Manuel Torres-Diz, Sebastian Unic, Anke Busch, Anna Orekhova, Monika Kuban, Mikhail Mesitov, Miriam M Mulorz, Rawan Shraim, Fridolin Kielisch, Jörg Faber, Yoseph Barash, Andrei Thomas-Tikhonenko, Kathi Zarnack, Stefan Legewie, Julian König
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Direct long-read RNA sequencing identifies a subset of questionable exitrons likely arising from reverse transcription artifacts
Resistance to CD19-directed immunotherapies in lymphoblastic leukemia has been attributed, among other factors, to several aberrant …
Laura Schulz, Manuel Torres-Diz, Mariela Cortés-López, Katharina E Hayer, Mukta Asnani, Sarah K Tasian, Yoseph Barash, Elena Sotillo, Kathi Zarnack, Julian König, Andrei Thomas-Tikhonenko
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Decoding a cancer-relevant splicing decision in the RON proto-oncogene using high-throughput mutagenesis
Mutations causing aberrant splicing are frequently implicated in human diseases including cancer. Here, we establish a high-throughput …
Simon Braun, Mihaela Enculescu, Samarth T Setty, Mariela Cortés-López, Bernardo P de Almeida, F X Reymond Sutandy, Laura Schulz, Anke Busch, Markus Seiler, Stefanie Ebersberger, Nuno L Barbosa-Morais, Stefan Legewie, Julian König, Kathi Zarnack
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Genome-wide circRNA profiling from RNA-seq data
The genome-wide expression patterns of circular RNAs (circRNAs) are of increasing interest for their potential roles in normal cellular …
Daphne A Cooper, Mariela Cortés-López, Pedro Miura
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Global accumulation of circRNAs during aging in Caenorhabditis elegans
BACKGROUND: Circular RNAs (CircRNAs) are a newly appreciated class of RNAs that lack free 5’ and 3’ ends, are expressed by …
Mariela Cortés-López, Matthew R Gruner, Daphne A Cooper, Hannah N Gruner, Alexandru-Ioan Voda, Alexander M van der Linden, Pedro Miura
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Loss of adult skeletal muscle stem cells drives age-related neuromuscular junction degeneration
Neuromuscular junction degeneration is a prominent aspect of sarcopenia, the age-associated loss of skeletal muscle integrity. …
Wenxuan Liu, Alanna Klose, Sophie Forman, Nicole D Paris, Lan Wei-LaPierre, Mariela Cortés-López, Aidi Tan, Morgan Flaherty, Pedro Miura, Robert T Dirksen, Joe V Chakkalakal
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