Browse by Research Team

Article

Concurrent profiling of localized transcriptome and RNA dynamics in neurons by spatial SLAMseq.
Dantsuji, S. and Chekulaeva, M.
Methods in Molecular Biology 2863 : 297-317. 2025

mRNA stability and m(6)A are major determinants of subcellular mRNA localization in neurons.
Loedige, I., Baranovskii, A., Mendonsa, S., Dantsuji, S., Popitsch, N., Breimann, L., Zerna, N., Cherepanov, V., Milek, M., Ameres, S. and Chekulaeva, M.
Molecular Cell 83 (15): 2709-2725. 3 August 2023

Massively parallel identification of mRNA localization elements in primary cortical neurons.
Mendonsa, S., von Kügelgen, N., Dantsuji, S., Ron, M., Breimann, L., Baranovskii, A., Lödige, I., Kirchner, M., Fischer, M., Zerna, N., Bujanic, L., Mertins, P., Ulitsky, I. and Chekulaeva, M.
Nature Neuroscience 26 (3): 394-405. March 2023

Multi-omics alleviates the limitations of panel sequencing for cancer drug response prediction.
Baranovskii, A., Gündüz, I.B., Franke, V., Uyar, B. and Akalin, A.
Cancers 14 (22): 5604. 15 November 2022

Identifying tumor cells at the single-cell level using machine learning.
Dohmen, J., Baranovskii, A., Ronen, J., Uyar, B., Franke, V. and Akalin, A.
Genome Biology 23 (1): 123. 30 May 2022

Transcriptome analysis reveals high tumor heterogeneity with respect to re-activation of stemness and proliferation programs.
Baranovsky, A., Ivanov, T., Granovskaya, M., Papatsenko, D. and Pervouchine, D.D.
PLoS ONE 17 (5): e0268626. 19 May 2022

The key features of SARS-CoV-2 leader and NSP1 required for viral escape of NSP1-mediated repression.
Bujanic, L., Shevchuk, O., von Kügelgen, N., Kalinina, A., Ludwik, K., Koppstein, D., Zerna, N., Sickmann, A. and Chekulaeva, M.
RNA 28 (5): 766-779. May 2022

Charcot-Marie-Tooth mutation in glycyl-tRNA synthetase stalls ribosomes in a pre-accommodation state and activates integrated stress response.
Mendonsa, S., von Kuegelgen, N., Bujanic, L. and Chekulaeva, M.
Nucleic Acids Research 49 (17): 10007-10017. 27 September 2021

A trans locus causes a ribosomopathy in hypertrophic hearts that affects mRNA translation in a protein length-dependent fashion.
Witte, F., Ruiz-Orera, J., Ciolli Mattioli, C., Blachut, S., Adami, E., Schulz, J.F., Schneider-Lunitz, V., Hummel, O., Patone, G., Mücke, M.B., Šilhavý, Jan, Heinig, M., Bottolo, L., Sanchis, D., Vingron, M., Chekulaeva, M., Pravenec, M., Hubner, N. and van Heesch, S.
Genome Biology 22 (1): 191. 28 June 2021

MACC1 regulates clathrin-mediated endocytosis and receptor recycling of transferrin receptor and EGFR in colorectal cancer.
Imbastari, F., Dahlmann, M., Sporbert, A., Ciolli Mattioli, C., Mari, T., Scholz, F., Timm, L., Twamley, S., Migotti, R., Walther, W., Dittmar, G., Rehm, A. and Stein, U.
Cellular and Molecular Life Sciences 78 (7): 3525-3542. April 2021

Roles of long noncoding RNAs and circular RNAs in translation.
Chekulaeva, M. and Rajewsky, N.
Cold Spring Harbor Perspectives in Biology 11 (6): a032680. 3 June 2019

Genome-wide analysis of RNA and protein localization and local translation in mESC-derived neurons.
Ludwik, K.A., von Kuegelgen, N. and Chekulaeva, M.
Methods 162-163 : 31-41. June 2019

Alternative 3' UTRs direct localization of functionally diverse protein isoforms in neuronal compartments.
Ciolli Mattioli, C., Rom, A., Franke, V., Imami, K., Arrey, G., Terne, M., Woehler, A., Akalin, A., Ulitsky, I. and Chekulaeva, M.
Nucleic Acids Research 47 (5): 2560-2573. 18 March 2019

RNA localization is a key determinant of neurite-enriched proteome.
Zappulo, A., van den Bruck, D., Ciolli Mattioli, C., Franke, V., Imami, K., McShane, E., Moreno-Estelles, M., Calviello, L., Filipchyk, A., Peguero-Sanchez, E., Müller, T., Woehler, A., Birchmeier, C., Merino, E., Rajewsky, N., Ohler, U., Mazzoni, E.O., Selbach, M., Akalin, A. and Chekulaeva, M.
Nature Communications 8 (1): 583. 19 September 2017

Translation of circRNAs.
Pamudurti, N.R., Bartok, O., Jens, M., Ashwal-Fluss, R., Stottmeister, C., Ruhe, L., Hanan, M., Wyler, E., Perez-Hernandez, D., Ramberger, E., Shenzis, S., Samson, M., Dittmar, G., Landthaler, M., Chekulaeva, M., Rajewsky, N. and Kadener, S.
Molecular Cell 66 (1): 9-21. 6 April 2017

Conservation of miRNA-mediated silencing mechanisms across 600 million years of animal evolution.
Mauri, M., Kirchner, M., Aharoni, R., Ciolli Mattioli, C., van den Bruck, D., Gutkovitch, N., Modepalli, V., Selbach, M., Moran, Y. and Chekulaeva, M.
Nucleic Acids Research 45 (2): 938-950. 25 January 2017

Epigenetic and neurological effects and safety of high-dose nicotinamide in patients with Friedreich's ataxia: an exploratory, open-label, dose-escalation study.
Libri, V., Yandim, C., Athanasopoulos, S., Loyse, N., Natisvili, T., Law, P.P., Chan, P.K., Mohammad, T., Mauri, M., Tam, K.T., Leiper, J., Piper, S., Ramesh, A., Parkinson, M.H., Huson, L., Giunti, P. and Festenstein, R.
Lancet 384 (9942): 504-513. 9 August 2014

miRNA repression involves GW182-mediated recruitment of CCR4-NOT through conserved W-containing motifs.
Chekulaeva, M., Mathys, H., Zipprich, J.T., Attig, J., Colic, M., Parker, R. and Filipowicz, W.
Nature Structural & Molecular Biology 18 (11): 1218-1226. 7 October 2011

The GW/WG repeats of Drosophila GW182 function as effector motifs for miRNA-mediated repression.
Chekulaeva, M., Parker, R. and Filipowicz, W.
Nucleic Acids Research 38 (19): 6673-6683. October 2010

Human Pat1b connects deadenylation with mRNA decapping and controls the assembly of processing bodies.
Ozgur, S., Chekulaeva, M. and Stoecklin, G.
Molecular and Cellular Biology 30 (17): 4308-4323. September 2010

Mechanisms of miRNA-mediated post-transcriptional regulation in animal cells.
Chekulaeva, M. and Filipowicz, W.
Current Opinion in Cell Biology 21 (3): 452-460. June 2009

Multiple independent domains of dGW182 function in miRNA-mediated repression in Drosophila.
Chekulaeva, M., Filipowicz, W. and Parker, R.
RNA 15 (5): 794-803. May 2009

Bruno acts as a dual repressor of oskar translation, promoting mRNA oligomerization and formation of silencing particles.
Chekulaeva, M., Hentze, M.W. and Ephrussi, A.
Cell 124 (3): 521-533. 10 February 2006

Review

Mechanistic insights into the basis of widespread RNA localization.
Chekulaeva, M.
Nature Cell Biology 26 (7): 1037-1046. July 2024

Novel targets, treatments, and advanced models for intracerebral haemorrhage.
Zille, M., Farr, T.D., Keep, R.F., Römer, C., Xi, G. and Boltze, J.
EBioMedicine 76 : 103880. 12 February 2022

Viruses and endogenous retroviruses as roots for neuroinflammation and neurodegenerative diseases.
Römer, C.
Frontiers in Neuroscience 15 : 648629. 12 March 2021

Conservation of a core neurite transcriptome across neuronal types and species.
von Kügelgen, N. and Chekulaeva, M.
Wiley Interdisciplinary Reviews: RNA 11 (4): e1590. July 2020

Eyes on translation.
Chekulaeva, M. and Landthaler, M.
Molecular Cell 63 (6): 918-925. 15 September 2016

Editorial

First demonstration of miRNA-dependent mRNA decay.
Chekulaeva, M.
Nature Reviews Molecular Cell Biology 24 (3): 164. March 2023

Drosophila development: RNA interference ab ovo.
Chekulaeva, M. and Ephrussi, A.
Current Biology 14 (11): R428-R430. 8 June 2004

Preprint

Neuromuscular dysfunction in patient-derived FUS(R244RR)-ALS iPSC model via axonal downregulation of neuromuscular junction proteins.
von Kuegelgen, N., Ludwik, K., Mendonsa, S., Roemer, C., Becher, E., Breimann, L., Strauch, M., Mari, T., Mongellaz, S., Zuckerman, B., Grexa, N., Oliveras-Martinez, A., Woehler, A., Selbach, M., La Bella, V., Ulitsky, I. and Chekulaeva, M.
bioRxiv : 2024.08.17.607965. 17 August 2024