Vahid Jalili

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MOTIVATION Improvement of sequencing technologies and data processing pipelines is rapidly providing sequencing data, with associated high-level features, of many individual genomes in multiple biological and clinical conditions. They allow for data-driven genomic, transcriptomic and epigenomic characterizations, but require state-of-the-art 'big data'(More)
Enriched region (ER) identification is a fundamental step in several next-generation sequencing (NGS) experiment types. Yet, although NGS experimental protocols recommend producing replicate samples for each evaluated condition and their consistency is usually assessed, typically pipelines for ER identification do not consider available NGS replicates. This(More)
MOTIVATION Chromatin Immunoprecipitation followed by sequencing (ChIP-seq) detects genome-wide DNA-protein interactions and chromatin modifications, returning enriched regions (ERs), usually associated with a significance score. Moderately significant interactions can correspond to true, weak interactions, or to false positives; replicates of a ChIP-seq(More)
In this report, we provide the specification of the Genomic Data Model (GDM) and of the Genometric Query Language (GMQL). The model and language have been defined as result of the first year of PRIN activity at Politecnico di Mlano; it is used as unifying data model and language for a number of ongoing collaborations between the various operating units of(More)
Visual information plays an indispensable role in our daily interactions with environment. Such information is manipulated for a wide range of purposes spanning from basic object and material perception to complex gesture interpretations. There have been novel studies in cognitive science for in-depth understanding of visual information manipulation, which(More)
Motivation: Improvement of sequencing technologies and data processing pipelines is rapidly providing sequencing data, with associated high-level features, of many individual genomes in multiple biological and clinical conditions. They allow for data-driven genomic, transcriptomic and epigenomic characterizations, but require state-of-the-art ‘big data’(More)
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