BMC Bioinformatics
VOLUME 17 SUPPLEMENT 12
Italian Society of Bioinformatics (BITS): Annual Meeting 2015
Proceedings
Publication of this supplement has not been supported by sponsorship. Information about the source of funding for publication charges can be found in the individual articles. The articles have undergone the journal's standard peer review process for supplements. The Supplement Editors declare that they have no competing interests.
Milan, Italy
3-5 June 2015
Edited by Marco Masseroli, Alessandro Guffanti and Luciano Milanesi.
- INTRODUCTION
BITS 2015: the annual meeting of the Italian Society of Bioinformatics
This preface introduces the content of the BioMed Central journal Supplements related to the BITS 2015 meeting, held in Milan, Italy, from the 3th to the 5th of June, 2015.BMC Bioinformatics 2016 17(Suppl 12):396Published on: 8 November 2016 - RESEARCH
KAOS: a new automated computational method for the identification of overexpressed genes
Kinase over-expression and activation as a consequence of gene amplification or gene fusion events is a well-known mechanism of tumorigenesis. The search for novel rearrangements of kinases or other druggable ...BMC Bioinformatics 2016 17(Suppl 12):340Published on: 8 November 2016 - RESEARCH
Analysis of amplicon-based NGS data from neurological disease gene panels: a new method for allele drop-out management
Amplicon-based targeted resequencing is a commonly adopted solution for next-generation sequencing applications focused on specific genomic regions. The reliability of such approaches rests on the high specifi...BMC Bioinformatics 2016 17(Suppl 12):339Published on: 8 November 2016 - RESEARCH
Optimized pipeline of MuTect and GATK tools to improve the detection of somatic single nucleotide polymorphisms in whole-exome sequencing data
Detecting somatic mutations in whole exome sequencing data of cancer samples has become a popular approach for profiling cancer development, progression and chemotherapy resistance. Several studies have propos...BMC Bioinformatics 2016 17(Suppl 12):341Published on: 8 November 2016 - RESEARCH
Protein complex prediction for large protein protein interaction networks with the Core&Peel method
Biological networks play an increasingly important role in the exploration of functional modularity and cellular organization at a systemic level. Quite often the first tools used to analyze these networks are cl...BMC Bioinformatics 2016 17(Suppl 12):372Published on: 8 November 2016 - RESEARCH
Removing duplicate reads using graphics processing units
During library construction polymerase chain reaction is used to enrich the DNA before sequencing. Typically, this process generates duplicate read sequences. Removal of these artifacts is mandatory, as they c...BMC Bioinformatics 2016 17(Suppl 12):346Published on: 8 November 2016 - RESEARCH
A comprehensive collection of annotations to interpret sequence variation in human mitochondrial transfer RNAs
The abundance of biological data characterizing the genomics era is contributing to a comprehensive understanding of human mitochondrial genetics. Nevertheless, many aspects are still unclear, specifically abo...BMC Bioinformatics 2016 17(Suppl 12):338Published on: 8 November 2016 - RESEARCH
Artificial neural network classifier predicts neuroblastoma patients’ outcome
More than fifty percent of neuroblastoma (NB) patients with adverse prognosis do not benefit from treatment making the identification of new potential targets mandatory. Hypoxia is a condition of low oxygen te...BMC Bioinformatics 2016 17(Suppl 12):347Published on: 8 November 2016 - RESEARCH
A fuzzy method for RNA-Seq differential expression analysis in presence of multireads
When the reads obtained from high-throughput RNA sequencing are mapped against a reference database, a significant proportion of them - known as multireads - can map to more than one reference sequence. These ...BMC Bioinformatics 2016 17(Suppl 12):345Published on: 8 November 2016 - RESEARCH
How interacting pathways are regulated by miRNAs in breast cancer subtypes
An important challenge in cancer biology is to understand the complex aspects of the disease. It is increasingly evident that genes are not isolated from each other and the comprehension of how different genes...BMC Bioinformatics 2016 17(Suppl 12):348Published on: 8 November 2016 - RESEARCH
Var2GO: a web-based tool for gene variants selection
One of the most challenging issue in the variant calling process is handling the resulting data, and filtering the genes retaining only the ones strictly related to the topic of interest. Several tools permit ...BMC Bioinformatics 2016 17(Suppl 12):376Published on: 8 November 2016
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