The mouse heart attack research tool 1.0 database

Kristine Y. Deleon-Pennell, Rugmani Padmanabhan Iyer, Yonggang Ma, Andriy Yabluchanskiy, Rogelio Zamilpa, Ying Ann Chiao, Presley L. Cannon, Abdullah Kaplan, Courtney A. Cates, Elizabeth R. Flynn, Ganesh V. Halade, Lisandra E. de Castro Brás, Merry L Lindsey

Research output: Contribution to journalArticle

2 Citations (Scopus)

Abstract

The generation of big data has enabled systems-level dissections into the mechanisms of cardiovascular pathology. Integration of genetic, proteomic, and pathophysiological variables across platforms and laboratories fosters discoveries through multidisciplinary investigations and minimizes unnecessary redundancy in research efforts. The Mouse Heart Attack Research Tool (mHART) consolidates a large data set of over 10 yr of experiments from a single laboratory for cardiovascular investigators to generate novel hypotheses and identify new predictive markers of progressive left ventricular remodeling after myocardial infarction (MI) in mice. We designed the mHART REDCap database using our own data to integrate cardiovascular community participation. We generated physiological, biochemical, cellular, and proteomic outputs from plasma and left ventricles obtained from post-MI and no-MI (naïve) control groups. We included both male and female mice ranging in age from 3 to 36 mo old. After variable collection, data underwent quality assessment for data curation (e.g., eliminate technical errors, check for completeness, remove duplicates, and define terms). Currently, mHART 1.0 contains >888,000 data points and includes results from >2,100 unique mice. Database performance was tested, and an example is provided to illustrate database utility. This report explains how the first version of the mHART database was established and provides researchers with a standard framework to aid in the integration of their data into our database or in the development of a similar database. NEW & NOTEWORTHY The Mouse Heart Attack Research Tool combines >888,000 cardiovascular data points from >2,100 mice. We provide this large data set as a REDCap database to generate novel hypotheses and identify new predictive markers of adverse left ventricular remodeling following myocardial infarction in mice and provide examples of use. The Mouse Heart Attack Research Tool is the first database of this size that integrates data sets across platforms that include genomic, proteomic, histological, and physiological data.

Original languageEnglish (US)
Pages (from-to)H522-H530
JournalAmerican Journal of Physiology - Heart and Circulatory Physiology
Volume315
Issue number3
DOIs
StatePublished - Sep 1 2018

Fingerprint

Myocardial Infarction
Databases
Research
Proteomics
Ventricular Remodeling
Research Personnel
Heart Ventricles
Dissection
Pathology
Control Groups
Datasets

Keywords

  • Big data
  • Bioinformatics
  • Cardiovascular disease
  • Myocardial infarction
  • Proteomics

ASJC Scopus subject areas

  • Physiology
  • Cardiology and Cardiovascular Medicine
  • Physiology (medical)

Cite this

Deleon-Pennell, K. Y., Iyer, R. P., Ma, Y., Yabluchanskiy, A., Zamilpa, R., Chiao, Y. A., ... Lindsey, M. L. (2018). The mouse heart attack research tool 1.0 database. American Journal of Physiology - Heart and Circulatory Physiology, 315(3), H522-H530. https://doi.org/10.1152/ajpheart.00172.2018

The mouse heart attack research tool 1.0 database. / Deleon-Pennell, Kristine Y.; Iyer, Rugmani Padmanabhan; Ma, Yonggang; Yabluchanskiy, Andriy; Zamilpa, Rogelio; Chiao, Ying Ann; Cannon, Presley L.; Kaplan, Abdullah; Cates, Courtney A.; Flynn, Elizabeth R.; Halade, Ganesh V.; de Castro Brás, Lisandra E.; Lindsey, Merry L.

In: American Journal of Physiology - Heart and Circulatory Physiology, Vol. 315, No. 3, 01.09.2018, p. H522-H530.

Research output: Contribution to journalArticle

Deleon-Pennell, KY, Iyer, RP, Ma, Y, Yabluchanskiy, A, Zamilpa, R, Chiao, YA, Cannon, PL, Kaplan, A, Cates, CA, Flynn, ER, Halade, GV, de Castro Brás, LE & Lindsey, ML 2018, 'The mouse heart attack research tool 1.0 database', American Journal of Physiology - Heart and Circulatory Physiology, vol. 315, no. 3, pp. H522-H530. https://doi.org/10.1152/ajpheart.00172.2018
Deleon-Pennell KY, Iyer RP, Ma Y, Yabluchanskiy A, Zamilpa R, Chiao YA et al. The mouse heart attack research tool 1.0 database. American Journal of Physiology - Heart and Circulatory Physiology. 2018 Sep 1;315(3):H522-H530. https://doi.org/10.1152/ajpheart.00172.2018
Deleon-Pennell, Kristine Y. ; Iyer, Rugmani Padmanabhan ; Ma, Yonggang ; Yabluchanskiy, Andriy ; Zamilpa, Rogelio ; Chiao, Ying Ann ; Cannon, Presley L. ; Kaplan, Abdullah ; Cates, Courtney A. ; Flynn, Elizabeth R. ; Halade, Ganesh V. ; de Castro Brás, Lisandra E. ; Lindsey, Merry L. / The mouse heart attack research tool 1.0 database. In: American Journal of Physiology - Heart and Circulatory Physiology. 2018 ; Vol. 315, No. 3. pp. H522-H530.
@article{17ee371b95d040dbb9677cb92b682ee3,
title = "The mouse heart attack research tool 1.0 database",
abstract = "The generation of big data has enabled systems-level dissections into the mechanisms of cardiovascular pathology. Integration of genetic, proteomic, and pathophysiological variables across platforms and laboratories fosters discoveries through multidisciplinary investigations and minimizes unnecessary redundancy in research efforts. The Mouse Heart Attack Research Tool (mHART) consolidates a large data set of over 10 yr of experiments from a single laboratory for cardiovascular investigators to generate novel hypotheses and identify new predictive markers of progressive left ventricular remodeling after myocardial infarction (MI) in mice. We designed the mHART REDCap database using our own data to integrate cardiovascular community participation. We generated physiological, biochemical, cellular, and proteomic outputs from plasma and left ventricles obtained from post-MI and no-MI (na{\"i}ve) control groups. We included both male and female mice ranging in age from 3 to 36 mo old. After variable collection, data underwent quality assessment for data curation (e.g., eliminate technical errors, check for completeness, remove duplicates, and define terms). Currently, mHART 1.0 contains >888,000 data points and includes results from >2,100 unique mice. Database performance was tested, and an example is provided to illustrate database utility. This report explains how the first version of the mHART database was established and provides researchers with a standard framework to aid in the integration of their data into our database or in the development of a similar database. NEW & NOTEWORTHY The Mouse Heart Attack Research Tool combines >888,000 cardiovascular data points from >2,100 mice. We provide this large data set as a REDCap database to generate novel hypotheses and identify new predictive markers of adverse left ventricular remodeling following myocardial infarction in mice and provide examples of use. The Mouse Heart Attack Research Tool is the first database of this size that integrates data sets across platforms that include genomic, proteomic, histological, and physiological data.",
keywords = "Big data, Bioinformatics, Cardiovascular disease, Myocardial infarction, Proteomics",
author = "Deleon-Pennell, {Kristine Y.} and Iyer, {Rugmani Padmanabhan} and Yonggang Ma and Andriy Yabluchanskiy and Rogelio Zamilpa and Chiao, {Ying Ann} and Cannon, {Presley L.} and Abdullah Kaplan and Cates, {Courtney A.} and Flynn, {Elizabeth R.} and Halade, {Ganesh V.} and {de Castro Br{\'a}s}, {Lisandra E.} and Lindsey, {Merry L}",
year = "2018",
month = "9",
day = "1",
doi = "10.1152/ajpheart.00172.2018",
language = "English (US)",
volume = "315",
pages = "H522--H530",
journal = "American Journal of Physiology - Renal Physiology",
issn = "0363-6127",
publisher = "American Physiological Society",
number = "3",

}

TY - JOUR

T1 - The mouse heart attack research tool 1.0 database

AU - Deleon-Pennell, Kristine Y.

AU - Iyer, Rugmani Padmanabhan

AU - Ma, Yonggang

AU - Yabluchanskiy, Andriy

AU - Zamilpa, Rogelio

AU - Chiao, Ying Ann

AU - Cannon, Presley L.

AU - Kaplan, Abdullah

AU - Cates, Courtney A.

AU - Flynn, Elizabeth R.

AU - Halade, Ganesh V.

AU - de Castro Brás, Lisandra E.

AU - Lindsey, Merry L

PY - 2018/9/1

Y1 - 2018/9/1

N2 - The generation of big data has enabled systems-level dissections into the mechanisms of cardiovascular pathology. Integration of genetic, proteomic, and pathophysiological variables across platforms and laboratories fosters discoveries through multidisciplinary investigations and minimizes unnecessary redundancy in research efforts. The Mouse Heart Attack Research Tool (mHART) consolidates a large data set of over 10 yr of experiments from a single laboratory for cardiovascular investigators to generate novel hypotheses and identify new predictive markers of progressive left ventricular remodeling after myocardial infarction (MI) in mice. We designed the mHART REDCap database using our own data to integrate cardiovascular community participation. We generated physiological, biochemical, cellular, and proteomic outputs from plasma and left ventricles obtained from post-MI and no-MI (naïve) control groups. We included both male and female mice ranging in age from 3 to 36 mo old. After variable collection, data underwent quality assessment for data curation (e.g., eliminate technical errors, check for completeness, remove duplicates, and define terms). Currently, mHART 1.0 contains >888,000 data points and includes results from >2,100 unique mice. Database performance was tested, and an example is provided to illustrate database utility. This report explains how the first version of the mHART database was established and provides researchers with a standard framework to aid in the integration of their data into our database or in the development of a similar database. NEW & NOTEWORTHY The Mouse Heart Attack Research Tool combines >888,000 cardiovascular data points from >2,100 mice. We provide this large data set as a REDCap database to generate novel hypotheses and identify new predictive markers of adverse left ventricular remodeling following myocardial infarction in mice and provide examples of use. The Mouse Heart Attack Research Tool is the first database of this size that integrates data sets across platforms that include genomic, proteomic, histological, and physiological data.

AB - The generation of big data has enabled systems-level dissections into the mechanisms of cardiovascular pathology. Integration of genetic, proteomic, and pathophysiological variables across platforms and laboratories fosters discoveries through multidisciplinary investigations and minimizes unnecessary redundancy in research efforts. The Mouse Heart Attack Research Tool (mHART) consolidates a large data set of over 10 yr of experiments from a single laboratory for cardiovascular investigators to generate novel hypotheses and identify new predictive markers of progressive left ventricular remodeling after myocardial infarction (MI) in mice. We designed the mHART REDCap database using our own data to integrate cardiovascular community participation. We generated physiological, biochemical, cellular, and proteomic outputs from plasma and left ventricles obtained from post-MI and no-MI (naïve) control groups. We included both male and female mice ranging in age from 3 to 36 mo old. After variable collection, data underwent quality assessment for data curation (e.g., eliminate technical errors, check for completeness, remove duplicates, and define terms). Currently, mHART 1.0 contains >888,000 data points and includes results from >2,100 unique mice. Database performance was tested, and an example is provided to illustrate database utility. This report explains how the first version of the mHART database was established and provides researchers with a standard framework to aid in the integration of their data into our database or in the development of a similar database. NEW & NOTEWORTHY The Mouse Heart Attack Research Tool combines >888,000 cardiovascular data points from >2,100 mice. We provide this large data set as a REDCap database to generate novel hypotheses and identify new predictive markers of adverse left ventricular remodeling following myocardial infarction in mice and provide examples of use. The Mouse Heart Attack Research Tool is the first database of this size that integrates data sets across platforms that include genomic, proteomic, histological, and physiological data.

KW - Big data

KW - Bioinformatics

KW - Cardiovascular disease

KW - Myocardial infarction

KW - Proteomics

UR - http://www.scopus.com/inward/record.url?scp=85051866583&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85051866583&partnerID=8YFLogxK

U2 - 10.1152/ajpheart.00172.2018

DO - 10.1152/ajpheart.00172.2018

M3 - Article

VL - 315

SP - H522-H530

JO - American Journal of Physiology - Renal Physiology

JF - American Journal of Physiology - Renal Physiology

SN - 0363-6127

IS - 3

ER -