Results 31 to 40 of about 22,135,367 (247)

Guide to Metabolomics Analysis: A Bioinformatics Workflow

, 2022
Metabolomics is an emerging field that quantifies numerous metabolites systematically. The key purpose of metabolomics is to identify the metabolites corresponding to each biological phenotype, and then provide an analysis of the mechanisms involved ...
En-Min Li, Li-Yan Xu, Yang Chen
core   +1 more source

Coordinated regulation of WNT/β-catenin, c-Met, and integrin signalling pathways by miR-193b controls triple negative breast cancer metastatic traits

BMC Cancer, 2021
Background Triple negative breast cancer (TNBC) is the most aggressive subtype of breast cancer (BC). Treatment options for TNBC patients are limited and further insights into disease aetiology are needed to develop better therapeutic approaches ...
Chiara Giacomelli, Janine Jung, Astrid Wachter, Susanne Ibing, Rainer Will, Stefan Uhlmann, Heiko Mannsperger, Özgür Sahin, Yosef Yarden, Tim Beißbarth, Ulrike Korf, Cindy Körner, Stefan Wiemann   +12 more
doaj   +1 more source

SARS-CoV-2 surveillance in Italy through phylogenomic inferences based on Hamming distances derived from pan-SNPs, -MNPs and -InDels

BMC Genomics, 2021
Background Faced with the ongoing global pandemic of coronavirus disease, the ‘National Reference Centre for Whole Genome Sequencing of microbial pathogens: database and bioinformatic analysis’ (GENPAT) formally established at the ‘Istituto ...
Adriano Di Pasquale, Nicolas Radomski, Iolanda Mangone, Paolo Calistri, Alessio Lorusso, Cesare Cammà   +5 more
doaj   +1 more source

FIREVAT: finding reliable variants without artifacts in human cancer samples using etiologically relevant mutational signatures

Genome Medicine, 2019
Background Accurate identification of real somatic variants is a primary part of cancer genome studies and precision oncology. However, artifacts introduced in various steps of sequencing obfuscate confidence in variant calling.
Hyunbin Kim, Andy Jinseok Lee, Jongkeun Lee, Hyonho Chun, Young Seok Ju, Dongwan Hong   +5 more
doaj   +1 more source

Harmonization of supervised machine learning practices for efficient source attribution of Listeria monocytogenes based on genomic data

BMC Genomics, 2023
Background Genomic data-based machine learning tools are promising for real-time surveillance activities performing source attribution of foodborne bacteria such as Listeria monocytogenes.
Pierluigi Castelli, Andrea De Ruvo, Andrea Bucciacchio, Nicola D’Alterio, Cesare Cammà, Adriano Di Pasquale, Nicolas Radomski   +6 more
doaj   +1 more source

Reproducible bioinformatics project: a community for reproducible bioinformatics analysis pipelines [PDF]

BMC Bioinformatics, 2018
Reproducibility of a research is a key element in the modern science and it is mandatory for any industrial application. It represents the ability of replicating an experiment independently by the location and the operator. Therefore, a study can be considered reproducible only if all used data are available and the exploited computational analysis ...
KULKARNI, NEHA SATISH, ALESSANDRÌ, LUCA, Riccardo Panero, Maddalena Arigoni, Martina Olivero, Giulio Ferrero, Francesca Cordero, Marco Beccuti, Raffaele A. Calogero   +8 more
openaire   +3 more sources

Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer

BMC Cancer, 2020
Background Estrogen receptor (ER) positive breast cancer is often effectively treated with drugs that inhibit ER signaling, i.e., tamoxifen (TAM) and aromatase inhibitors (AIs).
Maryam Soleimani Dodaran, Simone Borgoni, Emre Sofyalı, Pernette J. Verschure, Stefan Wiemann, Perry D. Moerland, Antoine H. C. van Kampen   +6 more
doaj   +1 more source

De novo genome assembly resolving repetitive structures enables genomic analysis of 35 European Mycoplasmopsis bovis strains

BMC Genomics, 2023
Mycoplasmopsis (M.) bovis, the agent of mastitis, pneumonia, and arthritis in cattle, harbors a small genome of approximately 1 Mbp. Combining data from Illumina and Nanopore technologies, we sequenced and assembled the genomes of 35 European strains and
Sandra Triebel, Konrad Sachse, Michael Weber, Martin Heller, Celia Diezel, Martin Hölzer, Christiane Schnee, Manja Marz   +7 more
doaj   +1 more source

Bioinformatic analysis of the protein/DNA interface [PDF]

Nucleic Acids Research, 2011
AbstractTo investigate the principles driving recognition between proteins and DNA, we analyzed more than thousand crystal structures of protein/DNA complexes. We classified protein and DNA conformations by structural alphabets, protein blocks [de Brevern, Etchebest and Hazout (2000) (Bayesian probabilistic approach for predicting backbone structures ...
Schneider, Bohdan, Cerny, Jirí, Svozil, Daniel, Cech, Petr, Gelly, Jean-Christophe, de Brevern, Alexandre   +5 more
openaire   +3 more sources

Development of a novel and rapid phenotype-based screening method to assess rice seedling growth

Plant Methods, 2020
Background Rice (Oryza sativa) is one of the most important model crops in plant research. Despite its considerable advantages, (phenotypic) bioassays for rice are not as well developed as for Arabidopsis thaliana.
Lena Vlaminck, Chananchida Sang-Aram, Deborah Botterman, Christine Jewel C. Uy, Mary Kay Harper, Dirk Inzé, Godelieve Gheysen, Stephen Depuydt   +7 more
doaj   +1 more source