An Updated Overview of Existing Cancer Databases and Identified Needs
Simple Summary This review examines the current state of cancer databases and identifies
key needs in the field. The analysis of 71 databases reveals a lack of dedicated lipidomic …
key needs in the field. The analysis of 71 databases reveals a lack of dedicated lipidomic …
Ten quick tips for avoiding pitfalls in multi-omics data integration analyses
Data are the most important elements of bioinformatics: Computational analysis of
bioinformatics data, in fact, can help researchers infer new knowledge about biology …
bioinformatics data, in fact, can help researchers infer new knowledge about biology …
[HTML][HTML] Data quality-aware genomic data integration
A Bernasconi - Computer Methods and Programs in Biomedicine …, 2021 - Elsevier
Genomic data are growing at unprecedented pace, along with new protocols, update
polices, formats and guidelines, terminologies and ontologies, which are made available …
polices, formats and guidelines, terminologies and ontologies, which are made available …
PEPhub: a database, web interface, and API for editing, sharing, and validating biological sample metadata
Background As biological data increase, we need additional infrastructure to share them
and promote interoperability. While major effort has been put into sharing data, relatively …
and promote interoperability. While major effort has been put into sharing data, relatively …
[HTML][HTML] PoliViews: A comprehensive and modular approach to the conceptual modeling of genomic data
The human genome complexity is captured by many signals, representing for instance DNA
variations, the expression of gene activity, or DNA's structural rearrangements; a rich set of …
variations, the expression of gene activity, or DNA's structural rearrangements; a rich set of …
A comprehensive approach for the conceptual modeling of genomic data
The human genome is traditionally represented as a DNA sequence of three billion base
pairs. However, its intricacies are captured by many more complex signals, representing …
pairs. However, its intricacies are captured by many more complex signals, representing …
Genomic data integration and user-defined sample-set extraction for population variant analysis
Background Population variant analysis is of great importance for gathering insights into the
links between human genotype and phenotype. The 1000 Genomes Project established a …
links between human genotype and phenotype. The 1000 Genomes Project established a …
Processing genome-wide association studies within a repository of heterogeneous genomic datasets
A Bernasconi, A Canakoglu, F Comolli - BMC genomic data, 2023 - Springer
Abstract Background Genome Wide Association Studies (GWAS) are based on the
observation of genome-wide sets of genetic variants–typically single-nucleotide …
observation of genome-wide sets of genetic variants–typically single-nucleotide …
Big Data Analytics for Precision Health and Prevention
E Capobianco, J Deng - Frontiers in big Data, 2022 - frontiersin.org
In the oncological context, big data analyses are quite complex due to heterogeneous data
structures and varieties (Agarwala et al., 2018). The defining characteristic of precision …
structures and varieties (Agarwala et al., 2018). The defining characteristic of precision …
BEDMS: A metadata standardizer for genomic region attributes
S Tambe, O Khoroshevskyi, SH Park, NJ LeRoy… - bioRxiv, 2024 - biorxiv.org
High-throughput sequencing technologies have generated vast omics data annotating
genomic regions. A challenge arises in integrating this data because the associated …
genomic regions. A challenge arises in integrating this data because the associated …