Proteomics

RNA-dependent interactome allows network-based assignment of RNA-binding protein function
Trypanosoma brucei is a single celled eukaryotic parasite in the group of the Kinetoplastea. The parasite harbors a single …
Simona Amodeo, Irina Bregy, Anneliese Hoffmann, Albert Fradera Sola, Mara Kern, Hélène Baudouin, Benoît Zuber, Falk Butter, Torsten Ochsenreiter
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DNA damage repair proteins across the Tree of Life
Genome maintenance is orchestrated by a highly regulated DNA damage response with specific DNA repair pathways. Here, we investigate …
Emily Nischwitz, Vivien A.C. Schoonenberg, Albert Fradera Sola, Mario Dejung, Olga Vydzhak, Michal Levin, Brian Luke, Falk Butter, Marion Scheibe
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RNA-dependent interactome allows network-based assignment of RNA-binding protein function
Mass spectrometry-based proteomics data was analyzed to characterize novel interactors for RNA-binding proteins. Network and systems biology strategies revealed concurrent interaction binding patterns and novel functionalities for such proteins.
Albert Fradera Sola, Emily Nischwitz, Marie Elisabeth Bayer, Susanne Kramer, Katja Luck, Falk Butter
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RNA-dependent interactome allows network-based assignment of RNA-binding protein function
Network-based assignment of RNA-binding protein function
In my main PhD project, I focused on RNA binding proteins (RBPs) and their role in RNA pathways. To better understand their functions, we selected RBPs based on their known involvement in these pathways and immunoprecipitated them. Through this approach, we were able to create a function-based network that allowed us to assign new functionalities to both known and novel RBPs. Our work on this project was recently presented at CSAMA 2022.
Slides
Network-based assignment of RNA-binding protein function
Characterization of the novel mitochondrial genome segregation factor TAP110 in Trypanosoma brucei
The protein of interest was investigated using mass spectrometry based quantitative proteomcis, under native and overexpressed conditions. The experimental method and following analysis were based on a label-free quantification approach.
Simona Amodeo, Ana Kalichava, Albert Fradera Sola, Eloïse Bertiaux-Lequoy, Paul Guichard, Falk Butter, Torsten Oschsenreiter
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PAR-TERRA is the main contributor to telomeric repeat-containing RNA transcripts in normal and cancer mouse cells
SILAC TERRA pulldowns were analyzed for human and murine cell lines. Enriched proteins were functionally analyzed with GO terms.
Nikenza Viceconte, Axelle Loriot, Patricia Lona Abreu, Marion Scheibe, Albert Fradera Sola, Falk Butter, Charles De Smet, Claus M. Azzalin, Nausica Arnoult, Anabelle Decottignies
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RBP interactome at CSAMA2022
RBPs interactome characterization flash-talk at CSAMA2022
Albert Fradera Sola
Feb 5, 2019