Publications by authors named "Dmitri D Pervouchine"

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Unveiling Functional Long-Range RNA Structures via RIC-seq Analysis.
Sergey Margasyuk, Dmitri D Pervouchine

Methods Mol Biol· November 2025

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Translon: a single term for translated regions.
Michał I Świrski, Jack A S Tierney, M Mar Albà, Dmitry E Andreev, Julie L Aspden, Dmitri D Pervouchine

Nat Methods· October 2025

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Human introns contain conserved tissue-specific cryptic poison exons.
Sergey Margasyuk, Antonina Kuznetsova, Lev Zavileyskiy, Maria Vlasenok, Dmitry Skvortsov, Dmitri D Pervouchine

NAR Genom Bioinform· December 2024

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and genes independently evolved RNA structures to control unproductive splicing.
Marina Petrova, Sergey Margasyuk, Margarita Vorobeva, Dmitry Skvortsov, Olga A Dontsova, Dmitri D Pervouchine

NAR Genom Bioinform· March 2024

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

RNA· September 2023

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Transcriptome sequencing suggests that pre-mRNA splicing counteracts widespread intronic cleavage and polyadenylation.
Maria Vlasenok, Sergey Margasyuk, Dmitri D Pervouchine

NAR Genom Bioinform· June 2023

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

Nucleic Acids Res· April 2023

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

PLoS One· May 2022

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

PLoS Comput Biol· April 2021

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

Nucleic Acids Res· January 2021

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A limited set of transcriptional programs define major cell types.
Alessandra Breschi, Manuel Muñoz-Aguirre, Valentin Wucher, Carrie A Davis, Diego Garrido-Martín, Dmitri D Pervouchine

Genome Res· July 2020

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

Biochim Biophys Acta Gene Regul Mech· February 2020

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An Evolutionary Mechanism for the Generation of Competing RNA Structures Associated with Mutually Exclusive Exons.
Timofei M Ivanov, Dmitri D Pervouchine

Genes (Basel)· July 2018

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Towards Long-Range RNA Structure Prediction in Eukaryotic Genes.
Dmitri D Pervouchine

Genes (Basel)· June 2018

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Gene-specific patterns of expression variation across organs and species.
Alessandra Breschi, Sarah Djebali, Jesse Gillis, Dmitri D Pervouchine, Alex Dobin

Genome Biol· July 2016

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Human genomics. The human transcriptome across tissues and individuals.
Marta Melé, Pedro G Ferreira, Ferran Reverter, David S DeLuca, Jean Monlong, Dmitri D Pervouchine

Science· May 2015

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Enhanced transcriptome maps from multiple mouse tissues reveal evolutionary constraint in gene expression.
Dmitri D Pervouchine, Sarah Djebali, Alessandra Breschi, Carrie A Davis, Pablo Prieto Barja

Nat Commun· January 2015

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A comparative encyclopedia of DNA elements in the mouse genome.
Feng Yue, Yong Cheng, Alessandra Breschi, Jeff Vierstra, Weisheng Wu, Dmitri D Pervouchine

Nature· November 2014

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IRBIS: a systematic search for conserved complementarity.
Dmitri D Pervouchine

RNA· October 2014

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

Bioinformatics· January 2013

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Evidence for widespread association of mammalian splicing and conserved long-range RNA structures.
Dmitri D Pervouchine, Ekaterina E Khrameeva, Marina Yu Pichugina, Oleksii V Nikolaienko, Mikhail S Gelfand

RNA· January 2012

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

Nucleic Acids Res· August 2009

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Low-dimensional maps encoding dynamics in entorhinal cortex and hippocampus.
Dmitri D Pervouchine, Theoden I Netoff, Horacio G Rotstein, John A White, Mark O Cunningham

Neural Comput· November 2006

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RNAKinetics: a web server that models secondary structure kinetics of an elongating RNA.
Ludmila V Danilova, Dmitri D Pervouchine, Alexander V Favorov, Andrei A Mironov

J Bioinform Comput Biol· April 2006

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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.
Horacio G Rotstein, Dmitri D Pervouchine, Corey D Acker, Martin J Gillies, John A White

J Neurophysiol· August 2005

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