Marianna Rapsomaniki  Marianna Rapsomaniki photo         

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Research Staff Member
Zurich Research Laboratory, Zurich, Switzerland
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Professional Associations:  International Society for Computational Biology

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2021

Modeling the Three-Dimensional Chromatin Structure from Hi-C Data with Transfer Learning
Tristan Meynier Georges, Maria Anna Rapsomaniki
Learning Meaningful Representations of Life NeurIPS 2021 Workshop

In silico analysis of DNA re-replication across a complete genome reveals cell-to-cell heterogeneity and genome plasticity
Maria Anna Rapsomaniki, Stella Maxouri, Patroula Nathanailidou, Manuel Ramirez Garrastacho, Nickolaos Nikiforos Giakoumakis, Stavros Taraviras, John Lygeros, Zoi Lygerou
NAR genomics and bioinformatics 3(1), 2021
Abstract

Spatial protein heterogeneity analysis in frozen tissues to evaluate tumor heterogeneity
Anna Fomitcheva-Khartchenko, Maria Anna Rapsomaniki, Bettina Sobottka, Peter Schraml, Govind V. Kaigala
PLOS ONE 16(11), Public Library of Science (PLoS), 2021
Abstract


2019

A stochastic hybrid model for DNA replication incorporating protein mobility dynamics
Jonas Windhager, Amelia Paine, Patroula Nathanailidou, Eve Tasiudi, Maria Rodriguez Martinez, Zoi Lygerou, John Lygeros, Maria Anna Rapsomaniki
bioRxiv, 2019

A Single-Cell Atlas of the Tumor and Immune Ecosystem of Human Breast Cancer
Johanna Wagner, Maria Anna Rapsomaniki, Stephane Chevrier, Tobias Anzeneder, Claus Langwieder, August Dykgers, Martin Rees, Annette Ramaswamy, Simone Muenst, Savas Deniz Soysal, Andrea Jacobs, Jonas Windhager, Karina Silina, Maries van den Broek, Konstantin Johannes Dedes, Maria Rodriguez Martinez, Walter Paul Weber, Bernd Bodenmiller
Cell 177(5), 1330-1345. e18, 2019


2018

Inference of the three-dimensional chromatin structure and its temporal behavior
Bianca-Cristina Cristescu, Zalan Borsos, John Lygeros, Maria Rodriguez Martinez, Maria Anna Rapsomaniki
Machine Learning for Molecules and Materials NeurIPS 2018 Workshop

EasyFRAP-web: a web-based tool for the analysis of fluorescence recovery after photobleaching data
Grigorios Koulouras, Andreas Panagopoulos, Maria Anna Rapsomaniki, Nickolaos N Giakoumakis, Stavros Taraviras, Zoi Lygerou
Nucleic Acids Research46, 2018

CellCycleTRACER accounts for cell cycle and volume in mass cytometry data
Maria Anna Rapsomaniki, Xiao-Kang Lun, Stefan Woerner, Marco Laumanns, Bernd Bodenmiller, María Rodríguez-Martínez
Nature Communications9, 2018


2017

Analysis of Protein Kinetics Using Fluorescence Recovery After Photobleaching (FRAP)
Nickolaos Nikiforos Giakoumakis*, Maria Anna Rapsomaniki*, and Zoi Lygerou
Light Microscopy: Methods and Protocols, 243--267, Springer, 2017


2016

IPP Complex Reinforces Adhesion by Relaying Tension-Dependent Signals to Inhibit Integrin Turnover
Katerina Vakaloglou, Georgios Chrysanthis, Maria Anna Rapsomaniki, Zoi Lygerou and Christos G Zervas
Cell reports 14(11), 2668--2682, Elsevier, 2016


2015

CK1δ restrains lipin-1 induction, lipid droplet formation and cell proliferation under hypoxia by reducing HIF-1α/ARNT complex formation
Maria Kourti, Georgia Ikonomou, Nikolaos-Nikiforos Giakoumakis, Maria Anna Rapsomaniki, Ulf Landegren, Symeon Siniossoglou, Zoi Lygerou, George Simos, Ilias Mylonis
Cellular signalling 27(6), 1129--1140, 2015

Inference of protein kinetics by stochastic modeling and simulation of fluorescence recovery after photobleaching experiments
Maria Anna Rapsomaniki, Eugenio Cinquemani, Nickolaos Nikiforos Giakoumakis, Panagiotis Kotsantis, John Lygeros, Zoi Lygerou
Bioinformatics 31(3), 355--362, 2015


2013

Multi-step loading of human minichromosome maintenance proteins in live human cells
Ioanna-Eleni Symeonidou, Panagiotis Kotsantis, Vassilis Roukos, Maria Anna Rapsomaniki, Hernn E. Grecco, Philippe Bastiaens, Stavros Taraviras, Zoi Lygerou
Journal of Biological Chemistry 288(50), 35852--35867, 2013


2012

Computational Methods and Algorithms for Mass Spectrometry Based Differential Proteomics: Recent Advances, Perspectives and Open Problems
Vasiliki Spyropoulou, Maria Anna Rapsomaniki, Konstantinos Theofilatos, Stergios Papadimitriou, Spiros Likothanassis, Athanasios Tsakalidis, Seferina Mavroudi
Current Proteomics 9(3), 143--159, 2012

easyFRAP: an interactive, easy-to-use tool for qualitative and quantitative analysis of FRAP data
Maria Anna Rapsomaniki, Panagiotis Kotsantis, Ioanna-Eleni Symeonidou, Nickolaos-Nikiforos Giakoumakis, Stavros Taraviras, Zoi Lygerou
Bioinformatics 28(13), 1800--1801, 2012


2010

A novel pre-miRNA classification approach for the prediction of microRNA genes
Konstantinos Theofilatos, Dimitrios Kleftogiannis, Maria Anna V. Rapsomaniki, Vasileios Haidinis, Spiridon D. Likothanassis, Athanasios K. Tsakalidis, Seferina P. Mavroudi
Information Technology and Applications in Biomedicine (ITAB), 2010 10th IEEE International Conference on, pp. 1--4, IEEE

A novel pipeline method for the preprocessing of Mass spectrometry proteomics data
Maria Anna V. Rapsomaniki, Panagiotis G. Zerefos, Konstantinos Theofilatos, Spiridon D. Likothanassis, Athanasios K. Tsakalidis, Seferina P. Mavroudi
Information Technology and Applications in Biomedicine (ITAB), 2010 10th IEEE International Conference on, pp. 1--4, IEEE