Protocol for computationally evaluating the loss of stoichiometry and coordinated expression of proteins

Stefan Hinz; Michael E Todhunter; Mark A LaBarge

doi:10.1016/j.xpro.2022.101182

Protocol for computationally evaluating the loss of stoichiometry and coordinated expression of proteins

STAR Protoc. 2022 Mar 16;3(2):101182. doi: 10.1016/j.xpro.2022.101182. eCollection 2022 Jun 17.

Authors

Stefan Hinz¹, Michael E Todhunter¹, Mark A LaBarge^{1

2}

Affiliations

¹ Department of Population Sciences, Beckman Research Institute, City of Hope, 1500 E. Duarte Road, Duarte, CA 91010, USA.
² Center for Cancer and Aging Research, City of Hope, 1500 E. Duarte Road, Duarte, CA 91010, USA.

Abstract

Dysregulation of the transcriptional or translational machinery can alter the stoichiometry of multiprotein complexes and occurs in natural processes such as aging. Loss of stoichiometry has been shown to alter protein complex functions. We provide a protocol and associated code that use omics data to quantify these stoichiometric changes via statistical dispersion utilizing the interquartile range of expression values per grouping variable. This descriptive statistical approach enables the quantification of stoichiometry changes without additional data acquisition. For complete details on the use and execution of this protocol, please refer to Hinz et al. (2021).

Keywords: Bioinformatics; Proteomics; RNAseq; Systems biology.

Publication types

Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

Proteins* / genetics
Proteomics* / methods

Substances

Proteins

Abstract

Publication types

MeSH terms

Substances

Grants and funding