Evidence map›Paper›PMID 34645894›Full record

ArticleScientific reports2021

Gene.iobio: an interactive web tool for versatile, clinically-driven variant interrogation and prioritization.

Tonya Di Sera, Matt Velinder, Alistair Ward, Yi Qiao, Stephanie Georges, Chase Miller, Anders Pitman, Will Richards, Aditya Ekawade, David Viskochil and 7 more

Erratum issuedAbstract read
In one paragraph

Article in Scientific reports, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
–field-weighted citation impact
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

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

7 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. The Clinical Variant Analysis Tool: Analyzing the evidence supporting reported genomic variation in clinical practice.Genetics in medicine : official journal of the American College of Medical Genetics · 2022
    Article
  6. Article
  7. Journal of personalized medicine · 2022
    Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

17 authors.

Tonya Di SeraUniversity of Utah, Salt Lake City, UT, USA.
Matt VelinderUniversity of Utah, Salt Lake City, UT, USA. matt.velinder@utah.edu.
Alistair WardUniversity of Utah, Salt Lake City, UT, USA.
Yi QiaoUniversity of Utah, Salt Lake City, UT, USA.
Stephanie GeorgesUniversity of Utah, Salt Lake City, UT, USA.
Chase MillerUniversity of Utah, Salt Lake City, UT, USA.
Anders PitmanUniversity of Utah, Salt Lake City, UT, USA.
Will RichardsUniversity of Utah, Salt Lake City, UT, USA.
Aditya EkawadeUniversity of Utah, Salt Lake City, UT, USA.
David ViskochilUniversity of Utah, Salt Lake City, UT, USA.
John C CareyUniversity of Utah, Salt Lake City, UT, USA.
Laura PaceUniversity of Utah, Salt Lake City, UT, USA.
Jim BaleUniversity of Utah, Salt Lake City, UT, USA.
Stacey L ClardyUniversity of Utah, Salt Lake City, UT, USA.
Ashley AndrewsUniversity of Utah, Salt Lake City, UT, USA.
Lorenzo BottoUniversity of Utah, Salt Lake City, UT, USA.
Gabor MarthUniversity of Utah, Salt Lake City, UT, USA. gabor.marth@gmail.com.

Funding

Enhancing clinical diagnostic analysis with a robust de novo mutation detection toolR01HG012286 · NHGRI · UTAH STATE HIGHER EDUCATION SYSTEM--UNIVERSITY OF UTAH · PI Gabor T Marth, MARTIN TRISTANI-FIROUZI · 2022 to 2026
$4.7M
IOBIO: Web-based, interactive tools for real-time analysis in genomic big dataR01HG009000 · NHGRI · UNIVERSITY OF UTAH · PI MARTH, GABOR T · 2017 to 2020
$2.9M
Web tools for physician-driven diagnostic interpretation of genomic patient dataR01HG009712 · NHGRI · UNIVERSITY OF UTAH · PI MARTH, GABOR T, TRISTANI-FIROUZI, MARTIN · 2017 to 2020
$2.8M
IOBIO based, distributed genomic data access, management, visualization, and analysisR44HG009096 · NHGRI · FRAMESHIFT LABS, INC. · PI MARTH, GABOR T, MILLER, CHASE · 2018 to 2019
$2.0M
Empowering real-time, web-based genomic big data analysis at commercial scale.R41HG009096 · NHGRI · FRAMESHIFT LABS, INC. · PI MARTH, GABOR T, MILLER, CHASE · 2016 to 2017
$275k
Visually-driven disease variant analysis empowering real-time clinical research.R41HG009629 · NHGRI · FRAMESHIFT LABS, INC. · PI MARTH, GABOR T, MILLER, CHASE · 2017 to 2017
$256k
Novel iobio analysis supporting genome scale data quality control.R43HG009868 · NHGRI · FRAMESHIFT LABS, INC. · PI MARTH, GABOR T, MILLER, CHASE · 2017 to 2017
$250k
NHGRI NIH HHS 5R01HG009000NHGRI NIH HHS R01 HG009000NHGRI NIH HHS R01 HG009712NHGRI NIH HHS R01 HG012286NHGRI NIH HHS R41 HG009096NHGRI NIH HHS R41 HG009629NHGRI NIH HHS R43 HG009868NHGRI NIH HHS R44 HG009096
6 · The paper itself

Abstract

With increasing utilization of comprehensive genomic data to guide clinical care, anticipated to become the standard of care in many clinical settings, the practice of diagnostic medicine is undergoing a notable shift. However, the move from single-gene or panel-based genetic testing to exome and genome sequencing has not been matched by the development of tools to enable diagnosticians to interpret increasingly complex or uncertain genomic findings. Here, we present gene.iobio, a real-time, intuitive and interactive web application for clinically-driven variant interrogation and prioritization. We show gene.iobio is a novel and effective approach that significantly improves upon and reimagines existing methods. In a radical departure from existing methods that present variants and genomic data in text and table formats, gene.iobio provides an interactive, intuitive and visually-driven analysis environment. We demonstrate that adoption of gene.iobio in clinical and research settings empowers clinical care providers to interact directly with patient genomic data both for establishing clinical diagnoses and informing patient care, using sophisticated genomic analyses that previously were only accessible via complex command line tools.

Indexed as

AdultAlgorithmsAllelesComputational BiologyDatabases, GeneticExomeExome SequencingGenetic TestingGenomicsHumansInternetMalePhenotypeProrenin ReceptorReceptors, Cell SurfaceSequence Analysis, DNAATP6AP2 protein, humanProrenin ReceptorReceptors, Cell SurfaceVacuolar Proton-Translocating ATPases

Identifiers

PMID34645894
PMCPMC8514592

What OpenQuestion holds

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LicenceCC BY
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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.