Multiple competing RNA structures dynamically control alternative splicing in the human ATE1 gene von Kalinina, Marina, Skvortsov, Dmitry, Kalmykova, Svetlana, Ivanov, Timofei, Dontsova, Olga, Pervouchine, Dmitri D

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The human transcriptome across tissues and individuals von Melé, Marta, Ferreira, Pedro G., Reverter, Ferran, DeLuca, David S., Monlong, Jean, Sammeth, Michael, Young, Taylor R., Goldmann, Jakob M, Pervouchine, Dmitri D., Sullivan, Timothy J., Johnson, Rory, Segrè, Ayellet V., Djebali, Sarah, Niarchou, Anastasia, Wright, Fred A., Lappalainen, Tuuli, Calvo, Miquel, Getz, Gad, Dermitzakis, Emmanouil T., Ardlie, Kristin G., Guigó, Roderic

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Transcriptome analysis reveals high tumor heterogeneity with respect to re-activation of stemness and proliferation programs von Baranovsky, Artem, Ivanov, Timofei, Granovskaya, Marina, Papatsenko, Dmitri, Pervouchine, Dmitri D

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An extended catalogue of tandem alternative splice sites in human tissue transcriptomes von Mironov, Aleksei, Denisov, Stepan, Gress, Alexander, Kalinina, Olga V., Pervouchine, Dmitri D.

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Intron-centric estimation of alternative splicing from RNA-seq data von Pervouchine, Dmitri D, Knowles, David G, Guigó, Roderic

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Gene-specific patterns of expression variation across organs and species von Breschi, Alessandra, Djebali, Sarah, Gillis, Jesse, Pervouchine, Dmitri D, Dobin, Alex, Davis, Carrie A, Gingeras, Thomas R, Guigó, Roderic

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Engineered riboregulators enable post-transcriptional control of gene expression von Collins, James J, Isaacs, Farren J, Dwyer, Daniel J, Ding, Chunming, Pervouchine, Dmitri D, Cantor, Charles R

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Circular exonic RNAs: When RNA structure meets topology von Pervouchine, Dmitri D.

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Neuronal Metabolism Governs Cortical Network Response State von Cunningham, M. O., Pervouchine, D. D., Racca, C., Kopell, N. J., Davies, C. H., Jones, R. S. G., Traub, R. D., Whittington, M. A.

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Post-transcriptional Regulation of Gene Expression via Unproductive Splicing von Zavileyskiy, L G, Pervouchine, D D

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Tandem Exon Duplications Expanding the Alternative Splicing Repertoire von Ivanov, T M, Pervouchine, D D

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RNAcontacts: A Pipeline for Predicting Contacts from RNA Proximity Ligation Assays von Margasyuk, S D, Vlasenok, M A, Li, G, Cao, Ch, Pervouchine, D D

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Cooperation and Competition of RNA Secondary Structure and RNA-Protein Interactions in the Regulation of Alternative Splicing von Vorobeva, M A, Skvortsov, D A, Pervouchine, D D

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Enhanced transcriptome maps from multiple mouse tissues reveal evolutionary constraint in gene expression von Pervouchine, Dmitri D., Djebali, Sarah, Breschi, Alessandra, Davis, Carrie A., Barja, Pablo Prieto, Dobin, Alex, Tanzer, Andrea, Lagarde, Julien, Zaleski, Chris, See, Lei-Hoon, Fastuca, Meagan, Drenkow, Jorg, Wang, Huaien, Bussotti, Giovanni, Pei, Baikang, Balasubramanian, Suganthi, Monlong, Jean, Harmanci, Arif, Gerstein, Mark, Beer, Michael A., Notredame, Cedric, Guigó, Roderic, Gingeras, Thomas R.

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RNA in situ conformation sequencing reveals novel long-range RNA structures with impact on splicing von Margasyuk, Sergei, Kalinina, Marina, Petrova, Marina, Skvortsov, Dmitry, Cao, Changchang, Pervouchine, Dmitri

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Slow and Fast Inhibition and an H-Current Interact to Create a Theta Rhythm in a Model of CA1 Interneuron Network von Rotstein, Horacio G, Pervouchine, Dmitri D, Acker, Corey D, Gillies, Martin J, White, John A, Buhl, Eberhardt H, Whittington, Miles A, Kopell, Nancy

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Evidence for widespread association of mammalian splicing and conserved long-range RNA structures von Pervouchine, Dmitri D, Khrameeva, Ekaterina E, Pichugina, Marina Yu, Nikolaienko, Oleksii V, Gelfand, Mikhail S, Rubtsov, Petr M, Mironov, Andrei A

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Modulation of alternative splicing by long-range RNA structures in Drosophila von Raker, Veronica A, Mironov, Andrei A, Gelfand, Mikhail S, Pervouchine, Dmitri D

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Tissue-specific regulation of gene expression via unproductive splicing von Mironov, Alexei, Petrova, Marina, Margasyuk, Sergey, Vlasenok, Maria, Mironov, Andrey A, Skvortsov, Dmitry, Pervouchine, Dmitri D

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IRBIS: a systematic search for conserved complementarity von Pervouchine, Dmitri D

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