About: MicrobioLink: An integrated computational pipeline to infer functional effects of microbiome-host interactions

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About: MicrobioLink: An integrated computational pipeline to infer functional effects of microbiome-host interactions Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	MicrobioLink: An integrated computational pipeline to infer functional effects of microbiome-host interactions
Creator	Korcsmaros, Tamas Andrighetti, Tahila Bohar, Balazs Lemke, Ney Sudhakar, Padhmanand
Source	BioRxiv
abstract	Microbiome-host interactions play significant roles in health and in various diseases including auto-immune disorders. Uncovering these inter-kingdom cross-talks propels our understanding of disease pathogenesis, and provides useful leads on potential therapeutic targets. Despite the biological significance of microbe-host interactions, there is a big gap in understanding the downstream effects of these interactions on host processes. Computational methods are expected to fill this gap by generating, integrating and prioritizing predictions - as experimental detection remains challenging due to feasibility issues. Here, we present MicrobioLink, a computational pipeline to integrate predicted interactions between microbial and host proteins together with host molecular networks. Using the concept of network diffusion, MicrobioLink can analyse how microbial proteins in a certain context are influencing cellular processes by modulating gene or protein expression. We demonstrated the applicability of the pipeline using a case study. We used gut metaproteomic data from Crohn’s disease patients and healthy controls to uncover the mechanisms by which the microbial proteins can modulate host genes which belong to biological processes implicated in disease pathogenesis. MicrobioLink, which is agnostic of the microbial protein sources (bacterial, viral etc), is freely available on GitHub (https://github.com/korcsmarosgroup/HMIpipeline).
has issue date	2020-05-15(xsd:dateTime)
bibo:doi	10.1101/837062
has license	biorxiv
sha1sum (hex)	1105c1d616dec7b9c53e6d03e6fa2d7a8ab6dc38
schema:url	https://doi.org/10.1101/837062
resource representing a document's title	MicrobioLink: An integrated computational pipeline to infer functional effects of microbiome-host interactions
schema:publication	bioRxiv
resource representing a document's body	covid:1105c1d616dec7b9c53e6d03e6fa2d7a8ab6dc38#body_text
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