Evidence map›Paper›PMID 29691798›Full record

ArticleNeuroinformatics2018

GPU Accelerated Browser for Neuroimaging Genomics.

Bob Zigon, Huang Li, Xiaohui Yao, Shiaofen Fang, Mohammad Al Hasan, Jingwen Yan, Jason H Moore, Andrew J Saykin, Li Shen, Alzheimer’s Disease Neuroimaging Initiative

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Neuroinformatics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors.

Bob ZigonBeckman Coulter, Indianapolis, IN, 46268, USA. robert.zigon@beckman.com.
Huang LiDepartment of Computer Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, 46202, USA.
Xiaohui YaoDepartment of BioHealth Informatics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, 46202, USA.
Shiaofen FangDepartment of Computer Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, 46202, USA.
Mohammad Al HasanDepartment of Computer Science, Indiana University-Purdue University Indianapolis, Indianapolis, IN, 46202, USA.
Jingwen YanDepartment of BioHealth Informatics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, 46202, USA.
Jason H MooreDepartment of Biostatistics, Epidemiology, Informatics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA.
Andrew J SaykinDepartment of Radiology and Imaging Sciences, IU School of Medicine, Indianapolis, IN, 46202, USA.
Li ShenDepartment of Biostatistics, Epidemiology, Informatics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA.ORCID 0000-0002-5443-0503
Alzheimer’s Disease Neuroimaging Initiative

Funding

Project 1U19AG024904 · NIA · NORTHERN CALIFORNIA INSTITUTE/RES/EDU · PI Duygu Tosun-Turgut · 2016 to 2026
$226.7M
Alzheimer's Disease Neuroimaging Initiative - SupplementU01AG024904 · NIA · NORTHERN CALIFORNIA INSTITUTE RES &EDUC · PI WEINER, MICHAEL W · 2004 to 2015
$121.0M
Research Education ComponentP30AG010133 · NIA · INDIANA UNIV-PURDUE UNIV AT INDIANAPOLIS · PI SAYKIN, ANDREW J · 1991 to 2020
$37.3M
Memory Circuitry in MCI and Early Alzheimer’s Disease Prodrome: Molecular DriversR01AG019771 · NIA · INDIANA UNIV-PURDUE UNIV AT INDIANAPOLIS · PI SAYKIN, ANDREW J · 2001 to 2021
$6.9M
Integrative Bioinformatics Approaches to Human Brain Genomics and ConnectomicsR01EB022574 · NIBIB · UNIVERSITY OF PENNSYLVANIA · PI SHEN, LI · 2016 to 2019
$1.9M
Bioinformatics Strategies for Multidimensional Brain Imaging GeneticsR01LM011360 · NLM · INDIANA UNIVERSITY INDIANAPOLIS · PI MOORE, JASON H., SAYKIN, ANDREW J · 2012 to 2015
$1.4M
Indiana University-Purdue University Indianapolis ITDP ProgramNIA NIH HHS P30 AG010133NIA NIH HHS P30 AG10133NIA NIH HHS R01 AG019771NIA NIH HHS U01 AG024904NIA NIH HHS U19 AG024904NIBIB NIH HHS R01 EB022574NLM NIH HHS R01 LM011360U.S. National Library of Medicine R01 LM011360
6 · The paper itself

Abstract

Neuroimaging genomics is an emerging field that provides exciting opportunities to understand the genetic basis of brain structure and function. The unprecedented scale and complexity of the imaging and genomics data, however, have presented critical computational bottlenecks. In this work we present our initial efforts towards building an interactive visual exploratory system for mining big data in neuroimaging genomics. A GPU accelerated browsing tool for neuroimaging genomics is created that implements the ANOVA algorithm for single nucleotide polymorphism (SNP) based analysis and the VEGAS algorithm for gene-based analysis, and executes them at interactive rates. The ANOVA algorithm is 110 times faster than the 4-core OpenMP version, while the VEGAS algorithm is 375 times faster than its 4-core OpenMP counter part. This approach lays a solid foundation for researchers to address the challenges of mining large-scale imaging genomics datasets via interactive visual exploration.

Indexed as

Web BrowserAlgorithmsAlzheimer DiseaseBrainData MiningGenomicsHumansNeuroimagingPolymorphism, Single NucleotideAlzheimer’s diseaseData miningGenomicsGPUMRIVersatile gene based association study

Identifiers

PMID29691798
PMCPMC6092242

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

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.