Multi omics analysis of fibrotic kidneys in two mouse models.

Animals Disease Models, Animal Fibrosis Kidney Diseases / genetics Mice MicroRNAs / genetics Proteome Proteomics RNA, Messenger / genetics Ureteral Obstruction

Journal

Scientific data
ISSN: 2052-4463
Titre abrégé: Sci Data
Pays: England
ID NLM: 101640192

Informations de publication

Date de publication:
14 06 2019
Historique:
received: 06 11 2018
accepted: 07 05 2019
entrez: 16 6 2019
pubmed: 16 6 2019
medline: 5 7 2019
Statut: epublish

Résumé

Kidney fibrosis represents an urgent unmet clinical need due to the lack of effective therapies and an inadequate understanding of the molecular pathogenesis. We have generated a comprehensive and combined multi-omics dataset (proteomics, mRNA and small RNA transcriptomics) of fibrotic kidneys that is searchable through a user-friendly web application: http://hbcreports.med.harvard.edu/fmm/ . Two commonly used mouse models were utilized: a reversible chemical-induced injury model (folic acid (FA) induced nephropathy) and an irreversible surgically-induced fibrosis model (unilateral ureteral obstruction (UUO)). mRNA and small RNA sequencing, as well as 10-plex tandem mass tag (TMT) proteomics were performed with kidney samples from different time points over the course of fibrosis development. The bioinformatics workflow used to process, technically validate, and combine the single omics data will be described. In summary, we present temporal multi-omics data from fibrotic mouse kidneys that are accessible through an interrogation tool (Mouse Kidney Fibromics browser) to provide a searchable transcriptome and proteome for kidney fibrosis researchers.

Identifiants

DOI: 10.1038/s41597-019-0095-5 PMID: 31201317 PMC: PMC6570759
pubmed: 31201317
doi: 10.1038/s41597-019-0095-5
pii: 10.1038/s41597-019-0095-5
pmc: PMC6570759
doi:

Substances chimiques

MicroRNAs 0
Proteome 0
RNA, Messenger 0

Types de publication

Dataset Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

92

Subventions

Organisme : NIEHS NIH HHS
ID : R01 ES017543
Pays : United States
Organisme : NIEHS NIH HHS
ID : R56 ES017543
Pays : United States
Organisme : NIGMS NIH HHS
ID : P50 GM107618
Pays : United States
Organisme : U.S. Department of Health & Human Services | NIH | National Center for Advancing Translational Sciences (NCATS)
ID : UL1 TR001102
Pays : International
Organisme : Deutsche Forschungsgemeinschaft (German Research Foundation)
ID : PA 2577/2-1
Pays : International
Organisme : NCATS NIH HHS
ID : UL1 TR001102
Pays : United States
Organisme : NHLBI NIH HHS
ID : U54 HL127365
Pays : United States

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Auteurs

Mira Pavkovic (M)

Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, USA.
Department of Medicine - Renal Division, Brigham and Women's Hospital, Boston, MA, USA.

Lorena Pantano (L)

Bioinformatics Core, Harvard T. H. Chan School of Public Health, Boston, MA, USA.

Cory V Gerlach (CV)

Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, USA.
Department of Medicine - Renal Division, Brigham and Women's Hospital, Boston, MA, USA.
Department of Environmental Health, Harvard T. H. Chan School of Public Health, Boston, MA, USA.

Sergine Brutus (S)

Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, USA.
Department of Environmental Health, Harvard T. H. Chan School of Public Health, Boston, MA, USA.
Department of Systems Biology, Harvard Medical School, Boston, MA, USA.

Sarah A Boswell (SA)

Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, USA.

Robert A Everley (RA)

Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, USA.

Jagesh V Shah (JV)

Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, USA.
Department of Medicine - Renal Division, Brigham and Women's Hospital, Boston, MA, USA.

Shannan H Sui (SH)

Bioinformatics Core, Harvard T. H. Chan School of Public Health, Boston, MA, USA.

Vishal S Vaidya (VS)

Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, USA. vvaidya@bwh.harvard.edu.
Department of Medicine - Renal Division, Brigham and Women's Hospital, Boston, MA, USA. vvaidya@bwh.harvard.edu.
Department of Environmental Health, Harvard T. H. Chan School of Public Health, Boston, MA, USA. vvaidya@bwh.harvard.edu.

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Classifications MeSH

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questionsmedicales.fr › Techniques d'investigation › Modèles théoriques › Modèles biologiques › Modèles animaux de maladie humaine › Multi omics analysis of fibrotic kidneys in...
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questionsmedicales.fr › Eucaryotes › Animaux › Chordés › Vertébrés › Mammifères › Eutheria › Rodentia › Muridae › Murinae › Souris › Multi omics analysis of fibrotic kidneys in...
questionsmedicales.fr › Acides nucléiques, nucléotides et nucléosides › Acides nucléiques › ARN › ARN non traduit › Petit ARN non traduit › microARN › Multi omics analysis of fibrotic kidneys in...
questionsmedicales.fr › Acides aminés, peptides et protéines › Protéines › Protéome › Multi omics analysis of fibrotic kidneys in...
questionsmedicales.fr › Disciplines des sciences naturelles › Chimie › Biochimie › Protéomique › Multi omics analysis of fibrotic kidneys in...
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questionsmedicales.fr › Maladies urogénitales › Maladies urologiques › Maladies urétérales › Obstruction urétérale › Multi omics analysis of fibrotic kidneys in...