Inferring Protein-Protein Interaction Networks From Mass Spectrometry-Based Proteomic Approaches: A Mini-Review

Studying protein-protein interaction networks provide key evidence for the underlying molecular mechanisms. Mass spectrometry-based proteomic approaches have been playing a pivotal role in deciphering these interaction networks, along with precise quantification for individual interactions. In this...

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Main Authors:	Kumar Yugandhar, Shagun Gupta, Haiyuan Yu
Format:	Article
Language:	English
Published:	Elsevier 2019-01-01
Series:	Computational and Structural Biotechnology Journal
Online Access:	http://www.sciencedirect.com/science/article/pii/S2001037019300911

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spelling	doaj-12c815e81300488facf6ddacaa4afbec2020-11-24T21:27:39ZengElsevierComputational and Structural Biotechnology Journal2001-03702019-01-0117805811Inferring Protein-Protein Interaction Networks From Mass Spectrometry-Based Proteomic Approaches: A Mini-ReviewKumar Yugandhar0Shagun Gupta1Haiyuan Yu2Department of Computational Biology, Cornell University, Ithaca, New York 14853, USA; Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, New York 14853, USADepartment of Computational Biology, Cornell University, Ithaca, New York 14853, USA; Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, New York 14853, USADepartment of Computational Biology, Cornell University, Ithaca, New York 14853, USA; Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, New York 14853, USA; Corresponding author at: Department of Computational Biology, Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, New York 14853, USAStudying protein-protein interaction networks provide key evidence for the underlying molecular mechanisms. Mass spectrometry-based proteomic approaches have been playing a pivotal role in deciphering these interaction networks, along with precise quantification for individual interactions. In this mini-review we discuss the available techniques and methods for qualitative and quantitative elucidation of protein-protein interaction networks. We then summarize the down-stream computational strategies for identification and quantification of interactions from those techniques. Finally, we highlight the challenges and limitations of current computational pipelines in eliminating false positive interactors, followed by a summary of the innovative algorithms to address these issues, along with the scope for future improvements. Keywords: Protein-protein, Interaction network, Systems biology, Mass spectrometry, Proteomicshttp://www.sciencedirect.com/science/article/pii/S2001037019300911
collection	DOAJ
language	English
format	Article
sources	DOAJ
author	Kumar Yugandhar Shagun Gupta Haiyuan Yu
spellingShingle	Kumar Yugandhar Shagun Gupta Haiyuan Yu Inferring Protein-Protein Interaction Networks From Mass Spectrometry-Based Proteomic Approaches: A Mini-Review Computational and Structural Biotechnology Journal
author_facet	Kumar Yugandhar Shagun Gupta Haiyuan Yu
author_sort	Kumar Yugandhar
title	Inferring Protein-Protein Interaction Networks From Mass Spectrometry-Based Proteomic Approaches: A Mini-Review
title_short	Inferring Protein-Protein Interaction Networks From Mass Spectrometry-Based Proteomic Approaches: A Mini-Review
title_full	Inferring Protein-Protein Interaction Networks From Mass Spectrometry-Based Proteomic Approaches: A Mini-Review
title_fullStr	Inferring Protein-Protein Interaction Networks From Mass Spectrometry-Based Proteomic Approaches: A Mini-Review
title_full_unstemmed	Inferring Protein-Protein Interaction Networks From Mass Spectrometry-Based Proteomic Approaches: A Mini-Review
title_sort	inferring protein-protein interaction networks from mass spectrometry-based proteomic approaches: a mini-review
publisher	Elsevier
series	Computational and Structural Biotechnology Journal
issn	2001-0370
publishDate	2019-01-01
description	Studying protein-protein interaction networks provide key evidence for the underlying molecular mechanisms. Mass spectrometry-based proteomic approaches have been playing a pivotal role in deciphering these interaction networks, along with precise quantification for individual interactions. In this mini-review we discuss the available techniques and methods for qualitative and quantitative elucidation of protein-protein interaction networks. We then summarize the down-stream computational strategies for identification and quantification of interactions from those techniques. Finally, we highlight the challenges and limitations of current computational pipelines in eliminating false positive interactors, followed by a summary of the innovative algorithms to address these issues, along with the scope for future improvements. Keywords: Protein-protein, Interaction network, Systems biology, Mass spectrometry, Proteomics
url	http://www.sciencedirect.com/science/article/pii/S2001037019300911
work_keys_str_mv	AT kumaryugandhar inferringproteinproteininteractionnetworksfrommassspectrometrybasedproteomicapproachesaminireview AT shagungupta inferringproteinproteininteractionnetworksfrommassspectrometrybasedproteomicapproachesaminireview AT haiyuanyu inferringproteinproteininteractionnetworksfrommassspectrometrybasedproteomicapproachesaminireview
_version_	1725974191668199424

Inferring Protein-Protein Interaction Networks From Mass Spectrometry-Based Proteomic Approaches: A Mini-Review

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