Evidence map›Paper›PMID 31960040›Full record

ArticleDatabase : the journal of biological databases and curation2020

Tripal EUtils: a Tripal module to increase exchange and reuse of genome assembly metadata.

B Conford, A Almsaeed, S Buehler, C P Childers, S P Ficklin, M E Staton, M F Poelchau

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Article in Database : the journal of biological databases and curation, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

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3 · Its place in the literature

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0 citing papers in PubMed.

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4 · The record

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5 · Who and what money

Authors and funding

7 authors.

B ConfordUnited States Department of Agriculture, Agricultural Research Service, National Agricultural Library, 10301 Baltimore Avenue, Beltsville, MD 20705, USA.
A AlmsaeedUnited States Department of Agriculture, Agricultural Research Service, National Agricultural Library, 10301 Baltimore Avenue, Beltsville, MD 20705, USA.
S BuehlerUnited States Department of Agriculture, Agricultural Research Service, National Agricultural Library, 10301 Baltimore Avenue, Beltsville, MD 20705, USA.
C P ChildersUnited States Department of Agriculture, Agricultural Research Service, National Agricultural Library, 10301 Baltimore Avenue, Beltsville, MD 20705, USA.
S P FicklinUnited States Department of Agriculture, Agricultural Research Service, National Agricultural Library, 10301 Baltimore Avenue, Beltsville, MD 20705, USA.
M E StatonUnited States Department of Agriculture, Agricultural Research Service, National Agricultural Library, 10301 Baltimore Avenue, Beltsville, MD 20705, USA.
M F PoelchauUnited States Department of Agriculture, Agricultural Research Service, National Agricultural Library, 10301 Baltimore Avenue, Beltsville, MD 20705, USA.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Data and metadata interoperability between data storage systems is a critical component of the FAIR data principles. Programmatic and consistent means of reconciling metadata models between databases promote data exchange and thus increases its access to the scientific community. This process requires (i) metadata mapping between the models and (ii) software to perform the mapping. Here, we describe our efforts to map metadata associated with genome assemblies between the National Center for Biotechnology Information (NCBI) data resources and the Chado biological database schema. We present mappings for multiple NCBI data structures and introduce a Tripal software module, Tripal EUtils, to pull metadata from NCBI into a Tripal/Chado database. We discuss potential mapping challenges and solutions and provide suggestions for future development to further increase interoperability between these platforms. Database URL: https://github.com/NAL-i5K/tripal_eutils.

Indexed as

Databases, GeneticGenomeMetadataProgramming LanguagesAlgorithmsAnimalsComputational BiologyGenomicsInformation Storage and RetrievalInvertebratesNational Library of Medicine (U.S.)PlantsSoftwareUnited States

Identifiers

PMID31960040
PMCPMC6989756

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.