A web-based framework for urban data sharing and dynamic integration

AbstractAs the scientific community becomes increasingly interested in data sharing, there is a growing need for tools that facilitate the querying of public data. Mining of RNA-seq datasets, for example, has value to many biomedical researchers, yet is often effectively inaccessible to non-genomicist experts, even when the raw data are available. Here we present DrEdGE (dredge.bio.unc.edu), a free Web-based tool that facilitates data sharing between genomicists and their colleagues. The DrEdGE software guides genomicists through easily creating interactive online data visualizations, which colleagues can then explore and query according to their own conditions to discover genes, samples, or patterns of interest. We demonstrate DrEdGE’s features with three example websites we generated from publicly available datasets—human neuronal tissue, mouse embryonic tissue, and a C. elegans embryonic series. DrEdGE increases the utility of large genomics datasets by removing the technical obstacles that prevent interested parties from exploring the data independently.

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PhenoDB, GeneMatcher and VariantMatcher, tools for analysis and sharing of sequence data

Orphanet Journal of Rare Diseases ◽

10.1186/s13023-021-01916-z ◽

2021 ◽

Vol 16 (1) ◽

Author(s):

Elizabeth Wohler ◽

Renan Martin ◽

Sean Griffith ◽

Eliete da S. Rodrigues ◽

Corina Antonescu ◽

...

Keyword(s):

Data Sharing ◽

Health Care Providers ◽

Disease Gene ◽

Sequence Data ◽

Gene Discovery ◽

Phenotypic Traits ◽

Care Providers ◽

Web Based ◽

Disease Gene Discovery ◽

Essential Components

Abstract Background With the advent of whole exome (ES) and genome sequencing (GS) as tools for disease gene discovery, rare variant filtering, prioritization and data sharing have become essential components of the search for disease genes and variants potentially contributing to disease phenotypes. The computational storage, data manipulation, and bioinformatic interpretation of thousands to millions of variants identified in ES and GS, respectively, is a challenging task. To aid in that endeavor, we constructed PhenoDB, GeneMatcher and VariantMatcher. Results PhenoDB is an accessible, freely available, web-based platform that allows users to store, share, analyze and interpret their patients’ phenotypes and variants from ES/GS data. GeneMatcher is accessible to all stakeholders as a web-based tool developed to connect individuals (researchers, clinicians, health care providers and patients) around the globe with interest in the same gene(s), variant(s) or phenotype(s). Finally, VariantMatcher was developed to enable public sharing of variant-level data and phenotypic information from individuals sequenced as part of multiple disease gene discovery projects. Here we provide updates on PhenoDB and GeneMatcher applications and implementation and introduce VariantMatcher. Conclusion Each of these tools has facilitated worldwide data sharing and data analysis and improved our ability to connect genes to phenotypic traits. Further development of these platforms will expand variant analysis, interpretation, novel disease-gene discovery and facilitate functional annotation of the human genome for clinical genomics implementation and the precision medicine initiative.

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Healthcare professionals’ acceptance of BelRAI, a web-based system enabling person-centred recording and data sharing across care settings with interRAI instruments: a UTAUT analysis

BMC Medical Informatics and Decision Making ◽

10.1186/1472-6947-13-129 ◽

2013 ◽

Vol 13 (1) ◽

Cited By ~ 28

Author(s):

Dirk Vanneste ◽

Bram Vermeulen ◽

Anja Declercq

Keyword(s):

Data Sharing ◽

Healthcare Professionals ◽

Web Based ◽

Web Based System

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A secure cloud-assisted urban data sharing framework for ubiquitous-cities

Pervasive and Mobile Computing ◽

10.1016/j.pmcj.2017.03.013 ◽

2017 ◽

Vol 41 ◽

pp. 219-230 ◽

Cited By ~ 68

Author(s):

Jian Shen ◽

Dengzhi Liu ◽

Jun Shen ◽

Qi Liu ◽

Xingming Sun

Keyword(s):

Data Sharing ◽

Urban Data

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