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51

Should network biology be used for drug discovery?

Martínez-Jiménez, Francisco, Marti-Renom, Marc A.

Journal:

Expert Opinion on Drug Discovery

Year:

2016

Language:

english

File:

PDF, 435 KB

english, 2016

52

Biological insertion of computationally designed short transmembrane segments

Baeza-Delgado, Carlos, von Heijne, Gunnar, Marti-Renom, Marc A., Mingarro, Ismael

Journal:

Scientific Reports

Year:

2016

Language:

english

File:

PDF, 1.58 MB

english, 2016

53

3D modeling of chromatin structure: is there a way to integrate and reconcile single cell and population experimental data?

Le Dily, François, Serra, François, Marti-Renom, Marc A.

Journal:

Wiley Interdisciplinary Reviews: Computational Molecular Science

Year:

2017

Language:

english

File:

PDF, 829 KB

english, 2017

54

Rational design of non-resistant targeted cancer therapies

Martínez-Jiménez, Francisco, Overington, John P., Al-Lazikani, Bissan, Marti-Renom, Marc A.

Journal:

Scientific Reports

Year:

2017

Language:

english

File:

PDF, 1.60 MB

english, 2017

55

Challenges for visualizing three-dimensional data in genomic browsers

Goodstadt, Mike, Marti-Renom, Marc A.

Journal:

Year:

2017

Language:

english

File:

PDF, 432 KB

english, 2017

56

Parallel sequencing lives, or what makes large sequencing projects successful

Quilez, Javier, Vidal, Enrique, Dily, François Le, Serra, François, Cuartero, Yasmina, Stadhouders, Ralph, Graf, Thomas, Marti-Renom, Marc A, Beato, Miguel, Filion, Guillaume

Journal:

Year:

2017

Language:

english

File:

PDF, 506 KB

english, 2017

57

OneD: increasing reproducibility of Hi-C samples with abnormal karyotypes

Vidal, Enrique, le Dily, François, Quilez, Javier, Stadhouders, Ralph, Cuartero, Yasmina, Graf, Thomas, Marti-Renom, Marc A, Beato, Miguel, Filion, Guillaume J

Journal:

Nucleic Acids Research

Year:

2018

Language:

english

File:

PDF, 726 KB

english, 2018

58

Distinct roles of cohesin-SA1 and cohesin-SA2 in 3D chromosome organization

Kojic, Aleksandar, Cuadrado, Ana, De Koninck, Magali, Giménez-Llorente, Daniel, Rodríguez-Corsino, Miriam, Gómez-López, Gonzalo, Le Dily, François, Marti-Renom, Marc A., Losada, Ana

Journal:

Nature Structural and Molecular Biology

Year:

2018

Language:

english

File:

PDF, 2.59 MB

english, 2018

59

Large Scale Chromosome Folding Is Stable against Local Changes in Chromatin Structure

Florescu, Ana-Maria, Therizols, Pierre, Rosa, Angelo, Marti-Renom, Marc A.

Journal:

PLoS Computational Biology

Year:

2016

Language:

english

File:

PDF, 2.90 MB

english, 2016

60

Effects of FGFR2 kinase activation loop dynamics on catalytic activity

Karp, Jerome M., Sparks, Samuel, Cowburn, David, Marti-Renom, Marc A.

Journal:

PLoS Computational Biology

Year:

2017

Language:

english

File:

PDF, 2.39 MB

english, 2017

61

Automatic analysis and 3D-modelling of Hi-C data using TADbit reveals structural features of the fly chromatin colors

Serra, François, Baù, Davide, Goodstadt, Mike, Castillo, David, Filion, Guillaume J., Marti-Renom, Marc A., Prlic, Andreas

Journal:

PLoS Computational Biology

Year:

2017

Language:

english

File:

PDF, 13.88 MB

english, 2017

62

Promoter bivalency favors an open chromatin architecture in embryonic stem cells

Mas, Glòria, Blanco, Enrique, Ballaré, Cecilia, Sansó, Miriam, Spill, Yannick G., Hu, Deqing, Aoi, Yuki, Le Dily, François, Shilatifard, Ali, Marti-Renom, Marc A., Di Croce, Luciano

Journal:

Nature Genetics

Year:

2018

Language:

english

File:

PDF, 5.63 MB

english, 2018

63

Challenges and guidelines toward 4D nucleome data and model standards

Marti-Renom, Marc A., Almouzni, Genevieve, Bickmore, Wendy A., Bystricky, Kerstin, Cavalli, Giacomo, Fraser, Peter, Gasser, Susan M., Giorgetti, Luca, Heard, Edith, Nicodemi, Mario, Nollmann, Marcelo,

Journal:

Nature Genetics

Year:

2018

Language:

english

File:

PDF, 1.09 MB

english, 2018

64

Biovisualization of the Genome, from Data Analysis and Hypothesis Generation to Communication and Learning

Goodstadt, Mike N., Marti-Renom, Marc A.

Journal:

Journal of Molecular Biology

Year:

2018

Language:

english

File:

PDF, 1.63 MB

english, 2018

65

Exploring chromatin hierarchical organization via Markov State Modelling

Tan, Zhen Wah, Guarnera, Enrico, Berezovsky, Igor N., Marti-Renom, Marc A.

Journal:

PLoS Computational Biology

Year:

2018

Language:

english

File:

PDF, 22.22 MB

english, 2018

66

Binless normalization of Hi-C data provides significant interaction and difference detection independent of resolution

Spill, Yannick G., Castillo, David, Vidal, Enrique, Marti-Renom, Marc A.

Journal:

Nature Communications

Year:

2019

Language:

english

File:

PDF, 966 KB

english, 2019

67

Specific Contributions of Cohesin-SA1 and Cohesin-SA2 to TADs and Polycomb Domains in Embryonic Stem Cells

Cuadrado, Ana, Giménez-Llorente, Daniel, Kojic, Aleksandar, Rodríguez-Corsino, Miriam, Cuartero, Yasmina, Martín-Serrano, Guillermo, Gómez-López, Gonzalo, Marti-Renom, Marc A., Losada, Ana

Journal:

Year:

2019

Language:

english

File:

PDF, 4.33 MB

english, 2019

68

Specific Contributions of Cohesin-SA1 and Cohesin-SA2 to TADs and Polycomb Domains in Embryonic Stem Cells

Cuadrado, Ana, Giménez-Llorente, Daniel, Kojic, Aleksandar, Rodríguez-Corsino, Miriam, Cuartero, Yasmina, Martín-Serrano, Guillermo, Gómez-López, Gonzalo, Marti-Renom, Marc A., Losada, Ana

Journal:

Year:

2019

File:

PDF, 4.33 MB

2019

69

Impact of Chromosome Fusions on 3D Genome Organization and Gene Expression in Budding Yeast

Di Stefano, Marco, Di Giovanni, Francesca, Pozharskaia, Vasilisa, Gomar-Alba, MercÃ¨, BaÃ¹, Davide, Carey, Lucas B., Marti-Renom, Marc A., Mendoza, Manuel

Journal:

Year:

2020

File:

PDF, 2.63 MB

2020

70

Open Source Research â the Power of Us

Kepler, Thomas B., Marti-Renom, Marc A., Maurer, Stephen M., Rai, Arti K., Taylor, Ginger, Todd, Matthew H.

Journal:

Australian Journal of Chemistry

Year:

2006

File:

PDF, 171 KB

2006

71

TADs without borders

Farabella, Irene, Marti-Renom, Marc A.

Journal:

Nature Genetics

Year:

2020

File:

PDF, 784 KB

2020

72

Hi-C chromosome conformation capture sequencing of avian genomes using the BGISEQ-500 platform

Sandoval-Velasco, Marcela, RodrÃguez, Juan Antonio, PerezÂ Estrada, Cynthia, Zhang, Guojie, LiebermanÂ Aiden, Erez, Marti-Renom, Marc A, Gilbert, M Thomas P, Smith, Oliver

Journal:

Year:

2020

File:

PDF, 1.06 MB

2020

73

CHESS enables quantitative comparison of chromatin contact data and automatic feature extraction

Galan, Silvia, Machnik, Nick, Kruse, Kai, DÃaz, Noelia, Marti-Renom, Marc A., Vaquerizas, Juan M.

Journal:

Nature Genetics

Year:

2020

File:

PDF, 11.00 MB

2020

74

4D nucleome modeling

Di Stefano, Marco, Paulsen, Jonas, Jost, Daniel, Marti-Renom, Marc A

Journal:

Current Opinion in Genetics & Development

Year:

2021

File:

PDF, 1.39 MB

2021

75

Muscle progenitor specification and myogenic differentiation are associated with changes in chromatin topology

Zhang, Nan, Mendieta-Esteban, Julen, Magli, Alessandro, Lilja, Karin C., Perlingeiro, Rita C. R., Marti-Renom, Marc A., Tsirigos, Aristotelis, Dynlacht, Brian David

Journal:

Nature Communications

Year:

2020

File:

PDF, 4.52 MB

2020