TREX reveals proteins that bind to specific RNA regions in living cells

Nature Methods. 2024 Feb 19. Online ahead of print.

https://doi.org/10.1038/s41592-024-02181-1

An mRNA processing pathway suppresses metastasis by governing translational control from the nucleus

Navickas A, Asgharian H, Winkler J, Fish L, Garcia K, Markett D, Dodel M, Culbertson B, Miglani S, Joshi T, Yin K, Nguyen P, Zhang S, Stevers N, Hwang HW, Mardakheh F, Goga A, Goodarzi H. (2023)

Nature Cell Biology  25(6):892-903. 

https://doi.org/10.1038/s41556-023-01141-9

TREX reveals proteins that bind to specific RNA regions in living cells

An ERK1/2-driven RNA-binding switch in nucleolin drives ribosome biogenesis and pancreatic tumorigenesis downstream of RAS oncogene

Systematic identification of post-transcriptional regulatory modules

ERG activity is regulated by endothelial FAK coupling with TRIM25/USP9x in vascular patterning

An RNA-binding switch drives ribosome biogenesis and tumorigenesis downstream of RAS oncogene

The elongation factor eEF1A2 controls translation and actin dynamics in dendritic spines

 

A prometastatic splicing program regulated by SNRPA1 interactions with structured RNA elements

Centrosome amplification mediates small extracellular vesicle secretion via lysosome disruption

Purification and quantitative proteomic analysis of cell bodies and protrusions

STAR Protocols  2, 2, 100462

https://doi.org/10.1016/j.xpro.2021.100462

Subcellular mRNA Localization Regulates Ribosome Biogenesis in Migrating Cells

Dermit M , Dodel M , Lee FCY, Azman MS , Schwenzer H, Jones JL, Blagden SP, Ule J, Mardakheh FK* (2020)                                                                                                                                                                     Developmental Cell 35, 3, 298-313.

(DOI: https://doi.org/10.1016/j.devcel.2020.10.006)

RBMS1 suppresses colon cancer metastasis through targeted stabilization of its mRNA regulon

Johnny Yu, Albertas Navickas, Hosseinali Asgharian, Bruce Culbertson, Lisa Fish, Kristle Garcia, John Paolo Olegario, Maria Dermit, Martin Dodel, Benjamin Hanisch, Yikai Luo, Ethan M Weinberg, Rodrigo Dienstmann, Robert S Warren, Faraz K Mardakheh and Hani Goodarzi. (2020)                                                                                                                                                                        Cancer Discovery (DOI: 10.1158/2159-8290.CD-19-1375)

https://cancerdiscovery.aacrjournals.org/content/early/2020/06/06/2159-8290.CD-19-1375

Maternal Larp6 controls oocyte development, chorion formation and elevation.

Hau HTA, Ogundele O, Hibbert AH, Monfries CAL, Exelby K, Wood NJ, Nevarez-Mejia J, Carbajal MA et al.(2020).

Development  vol. 147, (4)

10.1242/dev.187385

Subcellular mRNA localization regulates ribosome biogenesis in migrating cells.

Dermit M , Dodel M , Lee FCY, Azman MS , Schwenzer H, Jones JL, Blagden SP, Ule J, Mardakheh FK* (2019). 

bioRxiv (CSHL).

doi: https://doi.org/10.1101/829739

DNA repair deficiency sensitizes lung cancer cells to NAD+ biosynthesis blockade.

Touat M, Sourisseau T, Dorvault N, Chabanon RM, Garrido M, Morel D, Krastev DB, Bigot L et al.(2018).

Journal of Clinical Investigation vol. 128, (4) 1671-1687.

10.1172/JCI90277

Methods for monitoring and measurement of protein translation in time and space.

Dermit M, Dodel M, Mardakheh FK* (2017). 

Molecular BioSystems vol. 13, (12) 2477-2488.

https://pubs.rsc.org/en/content/articlehtml/2017/mb/c7mb00476a

RHO binding to FAM65A regulates Golgi reorientation during cell migration.

Proteomics profiling of interactome dynamics by colocalisation analysis (COLA).

Mardakheh FK*, Sailem HZ, Kümper S, Tape CJ, McCully RR, Paul A, Anjomani-Virmouni S, Jørgensen C et al.(2016). 

Mol Biosyst vol. 13, (1) 92-105.

https://pubs.rsc.org/en/content/articlehtml/2017/mb/c6mb00701e

Rho-associated kinase (ROCK) function is essential for cell cycle progression, senescence and tumorigenesis.

Kümper S, Mardakheh FK, McCarthy A, Yeo M, Stamp GW, Paul A, Worboys J, Sadok A et al.(2016). 

eLife vol. 5:e12994.

10.7554/eLife.12203.001

Global Analysis of mRNA, Translation, and Protein Localization: Local Translation Is a Key Regulator of Cell Protrusions. 

Mardakheh FK*, Paul A, Kümper S, Sadok A, Paterson H, Mccarthy A, Yuan Y, Marshall CJ (2015). 

Developmental Cell vol. 35, (3) 344-357.

10.1016/j.devcel.2015.10.005