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  1. No Access

    手机体育投注平台 Protocol

    Bioinformatics Resources for RNA Editing

    RNA editing is a widespread co/posttranscriptional mechanism affecting primary RNAs by specific nucleotide modifications, which plays relevant roles in molecular processes including regulation of gene expressi...

    Maria Angela Diroma, Loredana Ciaccia, Graziano Pesole, Ernesto Picardi in RNA Editing (2021)

  2. No Access

    手机体育投注平台 Protocol

    High-Throughput Sequencing to Detect DNA-RNA Changes

    The advent of deep sequencing technologies has greatly improved the study of complex eukaryotic genomes and transcriptomes, allowing the investigation of posttranscriptional molecular mechanisms as alternative...

    Claudio Lo Giudice, Graziano Pesole, Ernesto Picardi in RNA Editing (2021)

  3. 手机体育投注平台 Article

    Open Access

    Changes in gene expression and metabolic profile of drupes of Olea europaea L. cv Carolea in relation to maturation stage and cultivation area

    Olive (Olea europaea L.) is an emblematic oil tree crop in the Mediterranean basin. Currently, despite olive features as a moderately thermophilic species, its cultivation is worldwide spreading due to the health...

    Leonardo Bruno, Ernesto Picardi, Marianna Pacenza, Adriana Chiappetta in BMC Plant Biology (2019)

  4. Article

    Open Access

    Dynamic inosinome profiles reveal novel patient stratification and gender-specific differences in glioblastoma

    Adenosine-to-inosine (A-to-I) RNA editing is an essential post-transcriptional mechanism mediated by ADAR enzymes that have been recently associated with cancer.

    Domenico Alessandro Silvestris, Ernesto Picardi, Valeriana Cesarini in Genome Biology (2019)

  5. Article

    Open Access

    EphB2 stem-related and EphA2 progression-related miRNA-based networks in progressive stages of CRC evolution: clinical significance and potential miRNA drivers

    EphB2 and EphA2 control stemness and differentiation in the intestinal mucosa, but the way they cooperate with the complex mechanisms underlying tumor heterogeneity and how they affect the therapeutic outcome ...

    Mariangela De Robertis, Tommaso Mazza, Caterina Fusilli, Luisa Loiacono in Molecular Cancer (2018)

  6. Article

    Open Access

    CoVaCS: a consensus variant calling system

    手机体育投注平台 The advent and ongoing development of next generation sequencing technologies (NGS) has led to a rapid increase in the rate of human genome re-sequencing data, paving the way for personalized genomics and prec...

    Matteo Chiara, Silvia Gioiosa, Giovanni Chillemi, Mattia D’Antonio in BMC Genomics (2018)

  7. 手机体育投注平台 Article

    Open Access

    A-GAME: improving the assembly of pooled functional metagenomics sequence data

    Expression screening of environmental DNA (eDNA) libraries is a popular approach for the identification and characterization of novel microbial enzymes with promising biotechnological properties. In such “func...

    Matteo Chiara, Antonio Placido, Ernesto Picardi, Luigi Ruggiero Ceci in BMC Genomics (2018)

  8. No Access

    Protocol

    DNA Multiple Sequence Alignment Guided by Protein Domains: The MSA-PAD 2.0 Method

    Multiple sequence alignment (MSA) is a fundamental component in many DNA sequence analyses including metagenomics studies and phylogeny inference. When guided by protein profiles, DNA multiple alignments assum...

    Bachir Balech, Alfonso Monaco, Michele Perniola, Monica Santamaria in Viral Metagenomics (2018)

  9. Article

    Open Access

    TRIM8 restores p53 tumour suppressor function by blunting N-MYC activity in chemo-resistant tumours

    TRIM8 plays a key role in controlling the p53 molecular switch that sustains the transcriptional activation of cell cycle arrest genes and response to chemotherapeutic drugs. The mechanisms that regulate TRIM8...

    Francesca Mastropasqua, Flaviana Marzano, Alessio Valletti in Molecular Cancer (2017)

  10. No Access手机体育投注平台

    手机体育投注平台 Chapter and Conference Paper

    Unbiased Taxonomic Annotation of Metagenomic Samples

    The classification of reads from a metagenomic sample using a reference taxonomy is usually based on first mapping the reads to the reference sequences and then, classifying each read at a node under the lowes...

    Bruno Fosso, Graziano Pesole, Francesc Rosselló in Bioinformatics Research and Applications (2017)

  11. Article

    Open Access

    BioVeL: a virtual laboratory for data analysis and modelling in biodiversity science and ecology

    Making forecasts about biodiversity and giving support to policy relies increasingly on large collections of data held electronically, and on substantial computational capability and capacity to analyse, model...

    Alex R. Hardisty, Finn Bacall, Niall Beard, Maria-Paula Balcázar-Vargas in BMC Ecology (2016)

  12. No Access手机体育投注平台

    手机体育投注平台 Article

    Profile of microbial communities on carbonate stones of the medieval church of San Leonardo di Siponto (Italy) by Illumina-based deep sequencing

    手机体育投注平台 Comprehensive studies of the biodiversity of the microbial epilithic community on monuments may provide critical insights for clarifying factors involved in the colonization processes. We carried out a high-th...

    Guglielmina Chimienti, Roberta Piredda in Applied Microbiology and Biotechnology (2016)

  13. 手机体育投注平台 Article

    Open Access

    Diversity of hydrolases from hydrothermal vent sediments of the Levante Bay, Vulcano Island (Aeolian archipelago) identified by activity-based metagenomics and biochemical characterization of new esterases and an arabinopyranosidase

    手机体育投注平台 A metagenomic fosmid expression library established from environmental DNA (eDNA) from the shallow hot vent sediment sample collected from the Levante Bay, Vulcano Island (Aeolian archipelago) was established in

    Antonio Placido, Tran Hai, Manuel Ferrer in Applied Microbiology and Biotechnology (2015)

  14. Article

    Open Access

    BioMaS: a modular pipeline for Bioinformatic analysis of Metagenomic AmpliconS

    手机体育投注平台 Substantial advances in microbiology, molecular evolution and biodiversity have been carried out in recent years thanks to Metagenomics, which allows to unveil the composition and functions of mixed microbial ...

    Bruno Fosso, Monica Santamaria, Marinella Marzano in BMC Bioinformatics (2015)

  15. 手机体育投注平台 Article

    Open Access

    RAP: RNA-Seq Analysis Pipeline, a new cloud-based NGS web application

    The study of RNA has been dramatically improved by the introduction of Next Generation Sequencing platforms allowing massive and cheap sequencing of selected RNA fractions, also providing information on strand...

    Mattia D'Antonio, Paolo D'Onorio De Meo, Matteo Pallocca, Ernesto Picardi in BMC Genomics (2015)

  16. Article

    Open Access

    The influence of invasive jellyfish blooms on the aquatic microbiome in a coastal lagoon (Varano, SE Italy) detected by an Illumina-based deep sequencing strategy

    The rapid expansion of multicellular native and alien species outbreaks in aquatic and terrestrial ecosystems (bioinvasions) may produce significant impacts on bacterial community dynamics and nutrient pathways w...

    Caterina Manzari, Bruno Fosso, Marinella Marzano, Anita Annese in Biological Invasions (2015)

  17. No Access

    Protocol

    Exploring the RNA Editing Potential of RNA-Seq Data by ExpEdit

    Revealing the impact of A-to-I RNA editing in RNA-Seq experiments is relevant in humans because RNA editing can influence gene expression. In addition, its deregulation has been linked to a variety of human di...

    Mattia D’Antonio, Ernesto Picardi, Tiziana Castrignanò in RNA Bioinformatics (2015)

  18. No Access

    Protocol

    Transcriptome Assembly and Alternative Splicing Analysis

    Alternative Splicing (AS) is the molecular phenomenon whereby multiple transcripts are produced from the same gene locus. As a consequence, it is responsible for the expansion of eukaryotic transcriptomes. Abe...

    Paola Bonizzoni, Gianluca Della Vedova, Graziano Pesole in RNA Bioinformatics (2015)

  19. No Access

    Protocol

    A Guideline for the Annotation of UTR Regulatory Elements in the UTRsite Collection

    Gene expression regulatory elements are scattered in gene promoters and pre-mRNAs. In particular, RNA elements lying in untranslated regions (5′ and 3′UTRs) are poorly studied because of their peculiar feature...

    Matteo Giulietti, Giorgio Grillo, Sabino Liuni, Graziano Pesole in RNA Bioinformatics (2015)

  20. No Access

    Protocol

    ASPicDB: A Database Web Tool for Alternative Splicing Analysis

    Alternative splicing (AS) is a basic molecular phenomenon that increases the functional complexity of higher eukaryotic transcriptomes. Indeed, through AS individual gene loci can generate multiple RNAs from t...

    Mattia D’Antonio, Tiziana Castrgnanò, Matteo Pallocca in RNA Bioinformatics (2015)

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