Browsing by Author "Lakadamyali, Melike"

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  • Martin, Laura; Vicario, Chiara; Castells García, Àlvaro, 1991-; Lakadamyali, Melike; Neguembor, Maria Victoria; Cosma, Maria Pia (Elsevier, 2021)
    Here, we describe three complementary microscopy-based approaches to quantify morphological changes of chromatin organization in cultured adherent cells: the analysis of the coefficient of variation of DNA, the measurement ...
  • Luan, Jing; Xiang, Guanjue; Gómez García, Pablo; Tome, Jacob M.; Zhang, Zhe; Vermut, Marit W.; Zhang, Haoyue; Huang, Anran; Keller, Cheryl A.; Giardine, Belinda M.; Zhang, Yu; Lan, Yemin; Lis, John T.; Lakadamyali, Melike; Hardison, Ross C.; Blobel, Gerd A. (Cell Press, 2021)
    CCCTC-binding factor (CTCF) is a conserved zinc finger transcription factor implicated in a wide range of functions, including genome organization, transcription activation, and elongation. To explore the basis for CTCF ...
  • Planagumà, Jesús; Leypoldt, Frank; Mannara, Francesco; Gutiérrez Cuesta, Javier; Martín García, Elena, 1975-; Aguilar, Esther; Titulaer, Maarten J.; Petit-Pedrol, Mar; Jain, Ankit; Balice-Gordon, Rita; Lakadamyali, Melike; Graus, Francesc; Maldonado, Rafael, 1961-; Dalmau, Josep (Oxford University Press, 2015)
    Anti-N-methyl D-aspartate receptor (NMDAR) encephalitis is a severe neuropsychiatric disorder that associates with prominent memory and behavioural deficits. Patients' antibodies react with the N-terminal domain of the ...
  • Gómez García, Pablo; Portilllo-Ledesma, Stephanie; Neguembor, Maria Victoria; Pesaresi, Martina; Oweis, Walaa; Rohrlich, Talia; Wieser, Stefan; Meshorer, Eran; Schlick, Tamar; Cosma, Maria Pia; Lakadamyali, Melike (Science Direct, 2021)
    Nucleosomes form heterogeneous groups in vivo, named clutches. Clutches are smaller and less dense in mouse embryonic stem cells (ESCs) compared to neural progenitor cells (NPCs). Using coarse-grained modeling of the ...
  • Neguembor, Maria Victoria; Sebastián Pérez, Rubén; Aulicino, Francesco, 1987-; Gómez García, Pablo; Cosma, Maria Pia, 1970-; Lakadamyali, Melike (Oxford University Press, 2018)
    CRISPR/dCas9-based labeling has allowed direct visualization of genomic regions in living cells. However, poor labeling efficiency and signal-to-background ratio have limited its application to visualize genome organization ...
  • Ricci, Maria Aurelia, 1985-; Cosma, Maria Pia, 1970-; Lakadamyali, Melike (Elsevier, 2017)
    Chromatin fiber organization is essential for gene function in all cell types. Moreover it helps to determine cell fate in embryonic/adult stem cells and in somatic cells undergoing reprogramming to pluripotency. Until now ...
  • Castells García, Àlvaro, 1991-; Ed-Daoui, Ilyas; González-Almela, Esther; Vicario, Chiara; Ottestrom, Jason; Lakadamyali, Melike; Neguembor, Maria Victoria; Cosma, Maria Pia (Oxford University Press, 2022)
    Transcription and genome architecture are interdependent, but it is still unclear how nucleosomes in the chromatin fiber interact with nascent RNA, and which is the relative nuclear distribution of these RNAs and elongating ...
  • Martinez Sarmiento, Jose Angel (Universitat Pompeu Fabra, 2023-05-09)
    Elucidating the mechanism of somatic cell reprogramming has been hampered by the limitations of iPSC systems to uncover the correctly reprogramming cells. Here, by using the highly efficient heterokaryon system we dissected ...
  • Otterstrom, Jason; Castells García, Àlvaro, 1991-; Vicario, Chiara; Gómez García, Pablo; Cosma, Maria Pia, 1970-; Lakadamyali, Melike (Oxford University Press, 2019)
    Chromatin organization is crucial for regulating gene expression. Previously, we showed that nucleosomes form groups, termed clutches. Clutch size correlated with the pluripotency grade of mouse embryonic stem cells and ...
  • Neguembor, Maria Victoria; Martin, Laura; Castells García, Àlvaro, 1991-; Gómez García, Pablo; Vicario, Chiara; Carnevali, Davide; Abed, Jumana AlHaj; Granados, Alba; Sebastián Pérez, Rubén; Sottile, Francesco, 1988-; Solon, Jérôme; Wu, Chao-Ting; Lakadamyali, Melike; Cosma, Maria Pia, 1970- (Elsevier, 2021)
    The chromatin fiber folds into loops, but the mechanisms controlling loop extrusion are still poorly understood. Using super-resolution microscopy, we visualize that loops in intact nuclei are formed by a scaffold of cohesin ...
  • Lerner, Jonathan; Gómez García, Pablo; McCarthy, Ryan L.; Liu, Zhe; Lakadamyali, Melike; Zaret, Kenneth S. (Elsevier, 2020)
    This protocol provides a two-parameter analysis of single-molecule tracking (SMT) trajectories of Halo-tagged histones in living adherent cell lines and unveils a chromatin mobility landscape composed of five chromatin ...
  • Lakadamyali, Melike; Cosma, Maria Pia, 1970- (Nature Research, 2020)
    The relationship between the 4D folding of the genome and its function is an outstanding question in biology. A range of methods that probe the folding of the genome in space and time with unprecedented resolution have ...

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