Publications by authors named "Viola Fanfani"

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Sex differences in gene regulation and its impact on cancer incidence.
Camila M Lopes-Ramos, Rebekka Burkholz, Marouen Ben Guebila, Viola Fanfani, Enakshi Saha

bioRxiv· November 2025

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Sex differences in thyroid aging and their implications in thyroid disorders: insights from gene regulatory networks.
Enakshi Saha, Marouen Ben-Guebila, Chen Chen, Viola Fanfani, Katherine Hoff Shutta

bioRxiv· October 2025

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Multi-omics protein signaling networks identify sex-specific therapeutic candidates in lung adenocarcinoma.
Chen Chen, Enakshi Saha, Jonas Fischer, Marouen Ben Guebila, Viola Fanfani

Biol Sex Differ· September 2025

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Aging-associated alterations in gene regulatory networks associate with risk, prognosis and response to therapy in lung adenocarcinoma.
Enakshi Saha, Marouen Ben Guebila, Viola Fanfani, Katherine H Shutta, Dawn L DeMeo

NPJ Aging· July 2025

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Identifying Sex Differences in Lung Adenocarcinoma Using Multi-Omics Integrative Protein Signaling Networks.
Chen Chen, Enakshi Saha, Jonas Fischer, Marouen Ben Guebila, Viola Fanfani

bioRxiv· February 2025

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Reproducible processing of TCGA regulatory networks.
Viola Fanfani, Katherine H Shutta, Panagiotis Mandros, Jonas Fischer, Enakshi Saha

Gigascience· January 2025

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Reproducible processing of TCGA regulatory networks.
Viola Fanfani, Katherine H Shutta, Panagiotis Mandros, Jonas Fischer, Enakshi Saha

bioRxiv· November 2024

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Bayesian inference of sample-specific coexpression networks.
Enakshi Saha, Viola Fanfani, Panagiotis Mandros, Marouen Ben Guebila, Jonas Fischer

Genome Res· October 2024

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Selective loss of Y chromosomes in lung adenocarcinoma modulates the tumor immune environment through cancer/testis antigens.
Jonas Fischer, Katherine H Shutta, Chen Chen, Viola Fanfani, Enakshi Saha

bioRxiv· September 2024

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Gene regulatory networks reveal sex difference in lung adenocarcinoma.
Enakshi Saha, Marouen Ben Guebila, Viola Fanfani, Jonas Fischer, Katherine H Shutta

Biol Sex Differ· August 2024

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Aging-associated Alterations in the Gene Regulatory Network Landscape Associate with Risk, Prognosis and Response to Therapy in Lung Adenocarcinoma.
Enakshi Saha, Marouen Ben Guebila, Viola Fanfani, Katherine H Shutta, Dawn L DeMeo

bioRxiv· July 2024

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node2vec2rank: Large Scale and Stable Graph Differential Analysis via Multi-Layer Node Embeddings and Ranking.
Panagiotis Mandros, Ian Gallagher, Viola Fanfani, Chen Chen, Jonas Fischer

bioRxiv· June 2024

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Biologically informed NeuralODEs for genome-wide regulatory dynamics.
Intekhab Hossain, Viola Fanfani, Jonas Fischer, John Quackenbush, Rebekka Burkholz

Genome Biol· May 2024

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Biologically informed NeuralODEs for genome-wide regulatory dynamics.
Intekhab Hossain, Viola Fanfani, Jonas Fischer, John Quackenbush, Rebekka Burkholz

bioRxiv· January 2024

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Manipulating the 3D organization of the largest synthetic yeast chromosome.
Weimin Zhang, Luciana Lazar-Stefanita, Hitoyoshi Yamashita, Michael J Shen, Leslie A Mitchell, Viola Fanfani

Mol Cell· December 2023

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Debugging and consolidating multiple synthetic chromosomes reveals combinatorial genetic interactions.
Yu Zhao, Camila Coelho, Amanda L Hughes, Luciana Lazar-Stefanita, Sandy Yang, Viola Fanfani

Cell· November 2023

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Bayesian Optimized sample-specific Networks Obtained By Omics data (BONOBO).
Enakshi Saha, Viola Fanfani, Panagiotis Mandros, Marouen Ben-Guebila, Jonas Fischer

bioRxiv· November 2023

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Context-dependent neocentromere activity in synthetic yeast chromosome .
Stephanie Lauer, Jingchuan Luo, Luciana Lazar-Stefanita, Weimin Zhang, Laura H McCulloch, Viola Fanfani

Cell Genom· November 2023

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Synthetic yeast chromosome XI design provides a testbed for the study of extrachromosomal circular DNA dynamics.
Benjamin A Blount, Xinyu Lu, Maureen R M Driessen, Dejana Jovicevic, Mateo I Sanchez, Viola Fanfani

Cell Genom· November 2023

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Consequences of a telomerase-related fitness defect and chromosome substitution technology in yeast strains.
Laura H McCulloch, Vijayan Sambasivam, Amanda L Hughes, Narayana Annaluru, Sivaprakash Ramalingam, Viola Fanfani

Cell Genom· November 2023

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Gene regulatory Networks Reveal Sex Difference in Lung Adenocarcinoma.
Enakshi Saha, Marouen Ben Guebila, Viola Fanfani, Jonas Fischer, Katherine H Shutta

bioRxiv· September 2023

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The Network Zoo: a multilingual package for the inference and analysis of gene regulatory networks.
Marouen Ben Guebila, Tian Wang, Camila M Lopes-Ramos, Viola Fanfani, Des Weighill

Genome Biol· March 2023

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Biologically informed NeuralODEs for genome-wide regulatory dynamics.
Intekhab Hossain, Viola Fanfani, John Quackenbush, Rebekka Burkholz

Res Sq· March 2023

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Mutation landscape of multiple myeloma measurable residual disease: identification of targets for precision medicine.
Martina Zátopková, Tereza Ševčíková, Viola Fanfani, Zuzana Chyra, Lucie Říhová

Blood Adv· January 2022

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The Landscape of the Heritable Cancer Genome.
Viola Fanfani, Luca Citi, Adrian L Harris, Francesco Pezzella, Giovanni Stracquadanio

Cancer Res· May 2021

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