Mario Nicodemi

Istituto Nazionale di Fisica Nucleare, Sezione di Napoli

Also affiliated with University of Naples Federico II

Biochemistry, Genetics and Molecular BiologyMaterials ScienceEngineeringPhysics and Astronomy

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 100%percentile

0Author DataRank

Indexed papers

0in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Papers

Driven by 23 papers. Top paper: “Polymer physics indicates chromatin folding variability across single-cells results from state degeneracy in phase separation”.

Polymer physics indicates chromatin folding variability across single-cells results from state degeneracy in phase separation

Nature Communications(2020)10.1038/s41467-020-17141-4

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0DataRank · unranked

154 citations

Luca Fiorillo, Simona Bianco, Andrea M. Chiariello, Andrea Esposito, Mario Nicodemi +1 more

Computational approaches from polymer physics to investigate chromatin folding

Current Opinion in Cell Biology(2020)10.1016/j.ceb.2020.01.002

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0DataRank · unranked

43 citations

Andrea M. Chiariello, Mattia Conte, Andrea Esposito, Luca Fiorillo, Francesco Musella +2 more

Multiplex-GAM: genome-wide identification of chromatin contacts yields insights not captured by Hi-C

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.07.31.230284

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0DataRank · unranked

19 citations

Christoph J. Thieme, Carlo Annunziatella, Catherine Baugher, Yingnan Zhang, Markus Schueler +10 more

CTCF Promotes Long-range Enhancer-promoter Interactions and Lineage-specific Gene Expression in Mammalian Cells

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.03.21.001693

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0DataRank · unranked

14 citations

Haruhiko Ishii, Xiong Xiong, Simona Bianco, Franz Meitinger, Rong Hu +11 more

Cell-type specialization in the brain is encoded by specific long-range chromatin topologies

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.04.02.020990

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0DataRank · unranked

11 citations

Alexander Kukalev, Izabela Harabula, Luna Zea Redondo, Dominik Szabó, Mandy Meijer +25 more

Comparison of the Hi-C, GAM and SPRITE methods by use of polymer models of chromatin

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.04.24.059915

N/A

0DataRank · unranked

9 citations

Francesco Musella, Rieke Kempfer, Andrea M. Chiariello, Simona Bianco, Alexander Kukalev +7 more

Chromatin folding variability across single-cells results from state degeneracy in phase-separation

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.05.16.099275

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0DataRank · unranked

1 citations

Luca Fiorillo, Simona Bianco, Andrea M. Chiariello, Andrea Esposito, Mario Nicodemi +1 more

Extrusion without a motor: a new take on the loop extrusion model of genome organization

arXiv (Cornell University)(2020)10.48550/arxiv.2010.02548

N/A

0DataRank · unranked

0 citations

James Johnson, Davide Michieletto, A. N. Morozov, Mario Nicodemi, Peter R. Cook +2 more

CTCF mediates dosage- and sequence-context-dependent transcriptional insulation by forming local chromatin domains

Nature Genetics(2021)10.1038/s41588-021-00863-6

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0DataRank · unranked

198 citations

Quan Zhu, Adam Jussila, Yuanyuan Han, Bogdan Bintu, Colin Kern +13 more

Comparison of the Hi-C, GAM and SPRITE methods using polymer models of chromatin

Nature Methods(2021)10.1038/s41592-021-01135-1

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0DataRank · unranked

70 citations

Francesco Musella, Mattia Conte, Rieke Kempfer, Andrea M. Chiariello, Simona Bianco +8 more

Loop-extrusion and polymer phase-separation can co-exist at the single-molecule level to shape chromatin folding

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.11.02.466589

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0DataRank · unranked

5 citations

Ehsan Irani, Andrea M. Chiariello, Alex Abraham, Simona Bianco, Andrea Esposito +2 more

Polymer physics and machine learning reveal a combinatorial code linking chromatin 3D architecture to 1D epigenetics

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.03.01.433416

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0DataRank · unranked

4 citations

Simona Bianco, Andrea M. Chiariello, Alex Abraham, Luca Fiorillo, Mattia Conte +3 more

Loop-extrusion and polymer phase-separation can co-exist at the single-molecule level to shape chromatin folding

Nature Communications(2022)10.1038/s41467-022-31856-6

N/A

0DataRank · unranked

104 citations

Ehsan Irani, Andrea M. Chiariello, Alex Abraham, Simona Bianco, Andrea Esposito +2 more

Polymer physics reveals a combinatorial code linking 3D chromatin architecture to 1D chromatin states

Cell Reports(2022)10.1016/j.celrep.2022.110601

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0DataRank · unranked

46 citations

Simona Bianco, Andrea M. Chiariello, Alex Abraham, Luca Fiorillo, Mattia Conte +3 more

Multiplex-GAM: genome-wide identification of chromatin contacts yields insights overlooked by Hi-C

Nature Methods(2023)10.1038/s41592-023-01903-1

N/A

0DataRank · unranked

48 citations

Christoph J. Thieme, Carlo Annunziatella, Catherine Baugher, Yingnan Zhang, Markus Schueler +11 more

Multiscale modelling of chromatin 4D organization in SARS-CoV-2 infected cells

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.07.27.550709

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0DataRank · unranked

2 citations

Alex Abraham, Simona Bianco, Andrea Esposito, Francesca Vercellone, Mattia Conte +3 more

Phase separation of ecDNA aggregates establishes in-trans contact domains boosting selective MYC regulatory interactions

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.07.17.549291

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0DataRank · unranked

1 citations

Tommaso Matteuzzi, Andrea Esposito, Andrea M. Chiariello, Simona Bianco, Francesca Vercellone +2 more

Multiscale modelling of chromatin 4D organization in SARS-CoV-2 infected cells

Nature Communications(2024)10.1038/s41467-024-48370-6

N/A

0DataRank · unranked

25 citations

Alex Abraham, Simona Bianco, Andrea Esposito, Andrea Fontana, Francesca Vercellone +3 more

A Multiscale Perspective on Chromatin Architecture through Polymer Physics

Physiology(2024)10.1152/physiol.00050.2024

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0DataRank · unranked

5 citations

Andrea M. Chiariello, Andrea Esposito, Mattia Conte, Alex Abraham, Andrea Fontana +8 more

Polymer physics models reveal structural folding features of single-molecule gene chromatin conformations

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.07.16.603769

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0DataRank · unranked

1 citations

Alex Abraham, Andrea Esposito, Liyan Yang, Johan H. Gibcus, Krishna Mohan Parsi +6 more

Extensive folding variability between homologous chromosomes in mammalian cells

Molecular Systems Biology(2025)10.1038/s44320-025-00107-3

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0DataRank · unranked

5 citations

Alexander Kukalev, Rieke Kempfer, Christoph J. Thieme, Guido Mastrobuoni, Julia Markowski +12 more

Visualizing chromatin communication in living cells through Oligo-LiveFISH

Cell Reports Methods(2025)10.1016/j.crmeth.2025.101079

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0DataRank · unranked

0 citations

Mario Nicodemi, Mattia Conte

Specialised super-enhancer networks in stem cells and neurons

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.08.13.670083

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0DataRank · unranked

0 citations

Liam Speakman, Francesco Musella, Luca Fiorillo, Luna Zea-Redondo, Alexander Kukalev +12 more