@inproceedings{nuchar:tool:15,
  keywords = {fastflow},
  booktitle = {Proc. of Intl. Euromicro PDP 2015: Parallel Distributed and
               network-based Processing},
  title = {Parallel Exploration of the Nuclear Chromosome Conformation with
           {NuChart-II}},
  author = {Fabio Tordini and Maurizio Drocco and Claudia Misale and Luciano
            Milanesi and Pietro Li{\'o} and Ivan Merelli and Marco Aldinucci},
  abstract = {High-throughput molecular biology techniques are widely used to
              identify physical interactions between genetic elements located
              throughout the human genome. Chromosome Conformation Capture (3C)
              and other related techniques allow to investigate the spatial
              organisation of chromosomes in the cell's natural state. Recent
              results have shown that there is a large correlation between
              co-localization and co-regulation of genes, but these important
              information are hampered by the lack of biologists-friendly
              analysis and visualisation software. In this work we introduce
              NuChart-II, a tool for Hi-C data analysis that provides a
              gene-centric view of the chromosomal neighbour- hood in a
              graph-based manner. NuChart-II is an efficient and highly
              optimized C++ re-implementation of a previous prototype package
              developed in R. Representing Hi-C data using a graph- based
              approach overcomes the common view relying on genomic coordinates
              and permits the use of graph analysis techniques to explore the
              spatial conformation of a gene neighbourhood. },
  publisher = {IEEE},
  year = {2015},
}

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