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2015 ; 10
(12
): e0143274
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CARFMAP: A Curated Pathway Map of Cardiac Fibroblasts
#MMPMID26673252
Nim HT
; Furtado MB
; Costa MW
; Kitano H
; Rosenthal NA
; Boyd SE
PLoS One
2015[]; 10
(12
): e0143274
PMID26673252
show ga
The adult mammalian heart contains multiple cell types that work in unison under
tightly regulated conditions to maintain homeostasis. Cardiac fibroblasts are a
significant and unique population of non-muscle cells in the heart that have
recently gained substantial interest in the cardiac biology community. To better
understand this renaissance cell, it is essential to systematically survey what
has been known in the literature about the cellular and molecular processes
involved. We have built CARFMAP (http://visionet.erc.monash.edu.au/CARFMAP), an
interactive cardiac fibroblast pathway map derived from the biomedical literature
using a software-assisted manual data collection approach. CARFMAP is an
information-rich interactive tool that enables cardiac biologists to explore the
large body of literature in various creative ways. There is surprisingly little
overlap between the cardiac fibroblast pathway map, a foreskin fibroblast pathway
map, and a whole mouse organism signalling pathway map from the REACTOME
database. Among the use cases of CARFMAP is a common task in our cardiac biology
laboratory of identifying new genes that are (1) relevant to cardiac literature,
and (2) differentially regulated in high-throughput assays. From the expression
profiles of mouse cardiac and tail fibroblasts, we employed CARFMAP to
characterise cardiac fibroblast pathways. Using CARFMAP in conjunction with
transcriptomic data, we generated a stringent list of six genes that would not
have been singled out using bioinformatics analyses alone. Experimental
validation showed that five genes (Mmp3, Il6, Edn1, Pdgfc and Fgf10) are
differentially regulated in the cardiac fibroblast. CARFMAP is a powerful tool
for systems analyses of cardiac fibroblasts, facilitating systems-level
cardiovascular research.
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