Simone Ciccolella

Milan, 20126, Italy

Last Updated: 09/26/2026

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Found 13 publications

PangeBlocks: customized construction of pangenome graphs via maximal blocks.

PangeBlocks: customized construction of pangenome graphs via maximal blocks.

Journal: BMC bioinformatics

Published: June 25, 2024

Differential quantification of alternative splicing events on spliced pangenome graphs.

Differential quantification of alternative splicing events on spliced pangenome graphs.

Journal: PLoS computational biology

Published: April 10, 2024

RecGraph: recombination-aware alignment of sequences to variation graphs.

RecGraph: recombination-aware alignment of sequences to variation graphs.

Journal: Bioinformatics (Oxford, England)

Published: May 12, 2023

Reads2Vec: Efficient Embedding of Raw High-Throughput Sequencing Reads Data.

Reads2Vec: Efficient Embedding of Raw High-Throughput Sequencing Reads Data.

Journal: Journal of computational biology : a journal of computational molecular cell biology

Published: February 02, 2023

Accurate and fast clade assignment via deep learning and frequency chaos game representation.

Accurate and fast clade assignment via deep learning and frequency chaos game representation.

Journal: GigaScience

Published: May 04, 2022

MALVIRUS: an integrated application for viral variant analysis.

MALVIRUS: an integrated application for viral variant analysis.

Journal: BMC bioinformatics

Published: March 23, 2022

Simpler and Faster Development of Tumor Phylogeny Pipelines.

Simpler and Faster Development of Tumor Phylogeny Pipelines.

Journal: Journal of computational biology : a journal of computational molecular cell biology

Published: October 26, 2021

Effective Clustering for Single Cell Sequencing Cancer Data.

Effective Clustering for Single Cell Sequencing Cancer Data.

Journal: IEEE journal of biomedical and health informatics

Published: May 18, 2021

gpps: an ILP-based approach for inferring cancer progression with mutation losses from single cell data.

gpps: an ILP-based approach for inferring cancer progression with mutation losses from single cell data.

Journal: BMC bioinformatics

Published: August 17, 2020

Triplet-based similarity score for fully multilabeled trees with poly-occurring labels.

Triplet-based similarity score for fully multilabeled trees with poly-occurring labels.

Journal: Bioinformatics (Oxford, England)

Published: April 29, 2020

Inferring cancer progression from Single-Cell Sequencing while allowing mutation losses.

Inferring cancer progression from Single-Cell Sequencing while allowing mutation losses.

Journal: Bioinformatics (Oxford, England)

Published: November 11, 2019

Does Relaxing the Infinite Sites Assumption Give Better Tumor Phylogenies? An ILP-Based Comparative Approach.

Does Relaxing the Infinite Sites Assumption Give Better Tumor Phylogenies? An ILP-Based Comparative Approach.

Journal: IEEE/ACM transactions on computational biology and bioinformatics

Published: October 12, 2019

Showing 1-12 of 13

Last Updated: 09/26/2026