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Translational Bioinformatics Laboratory

The Translational Bioinformatics Laboratory at the Department of Medicine and Surgery, University of Milano-Bicocca, Milano, Italy
README.md

Translational Bioinformatics Laboratory

Welcome to the Translational Bioinformatics Laboratory at the Department of Medicine and Surgery of the University of Milano-Bicocca, Milano, Italy!

About Us

The Translational Bioinformatics Laboratory is a dynamic and interdisciplinary research group dedicated to advancing the field of translational bioinformatics. Located at the Department of Medicine and Surgery, University of Milano-Bicocca, we are committed to conducting cutting-edge research at the intersection of biology, medicine, and computational science.

Our mission is to leverage the power of data-driven approaches, computational techniques, and innovative technologies to accelerate the translation of biological discoveries into clinical applications. We are passionate about solving complex biomedical problems and contributing to the improvement of healthcare outcomes.

Contact Us

If you are interested in our research and would like to collaborate or learn more about our projects, please explore our GitHub repositories and reach out to us. We welcome contributions from the scientific community and value collaboration.

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  1. ASCETIC ASCETIC Public

    Forked from danro9685/ASCETIC

    ASCETIC (Agony-baSed Cancer EvoluTion InferenCe) is a novel framework for the inference of a set of statistically significant temporal patterns involving alternations in driver genes from cancer ge…

    R

  2. ASTUTE ASTUTE Public

    ASTUTE is an R package designed to integrate cancer genomic and transcriptomic data in order to perform genotype-phenotype mapping.

    R

  3. CIMLR CIMLR Public

    Forked from danro9685/CIMLR

    Implementations in both Matlab and R of the CIMLR method. The manuscript of the method is available at: https://www.nature.com/articles/s41467-018-06921-8

    MATLAB

  4. RESOLVE RESOLVE Public

    Forked from danro9685/RESOLVE

    RESOLVE (Robust EStimation Of mutationaL signatures Via rEgularization) is an R package for the the efficient extraction and assignment of mutational signatures from cancer genomes.

    R

  5. SIMLR SIMLR Public

    Forked from BatzoglouLabSU/SIMLR

    Implementations in both Matlab and R of the SIMLR method. The manuscript of the method is available at: https://www.nature.com/articles/nmeth.4207

    MATLAB

  6. SparseSignatures SparseSignatures Public

    Forked from danro9685/SparseSignatures

    Extracting mutational signatures via LASSO. The manuscript of the method is published on PLOS Computational Biology and available at: https://journals.plos.org/ploscompbiol/article?id=10.1371/journ…

    R

Repositories

Showing 10 of 15 repositories
  • OncoScore Public Forked from danro9685/OncoScore

    OncoScore is a tool to measure the association of genes to cancer based on citation frequency in biomedical literature. The manuscript of the method is published on Scientific Reports and available at http://www.nature.com/articles/srep46290.

    ramazzottilab/OncoScore’s past year of commit activity
    R 0 GPL-3.0 2 0 0 Updated Nov 1, 2024
  • ASTUTE Public

    ASTUTE is an R package designed to integrate cancer genomic and transcriptomic data in order to perform genotype-phenotype mapping.

    ramazzottilab/ASTUTE’s past year of commit activity
    R 0 Apache-2.0 0 0 0 Updated Nov 1, 2024
  • RESOLVE Public Forked from danro9685/RESOLVE

    RESOLVE (Robust EStimation Of mutationaL signatures Via rEgularization) is an R package for the the efficient extraction and assignment of mutational signatures from cancer genomes.

    ramazzottilab/RESOLVE’s past year of commit activity
    R 0 Apache-2.0 1 0 0 Updated Oct 31, 2024
  • SparseSignatures Public Forked from danro9685/SparseSignatures

    Extracting mutational signatures via LASSO. The manuscript of the method is published on PLOS Computational Biology and available at: https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1009119

    ramazzottilab/SparseSignatures’s past year of commit activity
    R 0 Apache-2.0 5 0 0 Updated Oct 31, 2024
  • VERSO Public Forked from BIMIB-DISCo/VERSO

    Viral Evolution ReconStructiOn (VERSO). The manuscript of the method is available at: https://www.cell.com/patterns/fulltext/S2666-3899(21)00022-2

    ramazzottilab/VERSO’s past year of commit activity
    R 0 4 0 0 Updated Oct 31, 2024
  • TRONCO Public Forked from BIMIB-DISCo/TRONCO

    Repository of the TRanslational ONCOlogy library, which includes various algorithms (such as CAPRESE and CAPRI) and the Pipeline for Cancer Inference (PICNIC).

    ramazzottilab/TRONCO’s past year of commit activity
    R 0 GPL-3.0 7 0 0 Updated Oct 31, 2024
  • LACE Public Forked from BIMIB-DISCo/LACE

    LACE 2.0 is a new release of the LACE R Bioconductor package, which provides an interactive user interface to perform clonal evolution analyses for single-cell sequencing data, including longitudinal experiments. The tool also allows to annotate and retrieve the relevant variants based on user-defined criteria.

    ramazzottilab/LACE’s past year of commit activity
    R 0 GPL-3.0 4 0 0 Updated Oct 31, 2024
  • SIMLR Public Forked from BatzoglouLabSU/SIMLR

    Implementations in both Matlab and R of the SIMLR method. The manuscript of the method is available at: https://www.nature.com/articles/nmeth.4207

    ramazzottilab/SIMLR’s past year of commit activity
    MATLAB 0 GPL-3.0 61 0 0 Updated Oct 31, 2024
  • ASCETIC Public Forked from danro9685/ASCETIC

    ASCETIC (Agony-baSed Cancer EvoluTion InferenCe) is a novel framework for the inference of a set of statistically significant temporal patterns involving alternations in driver genes from cancer genomics data. Preprint at https://www.nature.com/articles/s41467-023-41670-3

    ramazzottilab/ASCETIC’s past year of commit activity
    R 0 Apache-2.0 1 0 0 Updated Oct 31, 2024
  • PMCE Public Forked from BIMIB-DISCo/PMCE

    GitHub repository of the PMCE Framework. F. Angaroni, K. Chen, C. Damiani, G. Caravagna, A. Graudenzi, D. Ramazotti, PMCE: efficient inference of expressive models of cancer evolution with high prognostic power, Bioinformatics, 2021; btab717, https://doi.org/10.1093/bioinformatics/btab717

    ramazzottilab/PMCE’s past year of commit activity
    C 0 Apache-2.0 1 0 0 Updated Oct 17, 2023
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