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Intrinsic and extrinsic noise are distinguishable in a synthesis – export – degradation model of mRNA production

Gorin, Gennady and Pachter, Lior (2020) Intrinsic and extrinsic noise are distinguishable in a synthesis – export – degradation model of mRNA production. . (Unpublished) https://resolver.caltech.edu/CaltechAUTHORS:20200928-131238226

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Abstract

Intrinsic and extrinsic noise sources in gene expression, originating respectively from transcriptional stochasticity and from differences between cells, complicate the determination of transcriptional models. In particularly degenerate cases, the two noise sources are altogether impossible to distinguish. However, the incorporation of downstream processing, such as the mRNA splicing and export implicated in gene expression buffering, recovers the ability to identify the relevant source of noise. We report analytical copy-number distributions, discuss the noise sources’ qualitative effects on lower moments, and provide simulation routines for both models.


Item Type:Report or Paper (Discussion Paper)
Related URLs:
URLURL TypeDescription
https://doi.org/10.1101/2020.09.25.312868DOIDiscussion Paper
https://github.com/pachterlab/GP_2020_2Related ItemData/Code
ORCID:
AuthorORCID
Gorin, Gennady0000-0001-6097-2029
Pachter, Lior0000-0002-9164-6231
Additional Information:The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license. Posted September 25, 2020. The DNA, pre-mRNA, and mature mRNA illustrations used in Figure 1, modified from [26], are derivatives of the DNA Twemoji by Twitter, Inc., used under CC-BY 4.0. G.G. and L.P. are partially funded by NIH U19MH114830. Code Availability: MATLAB and Python code that can be used to reproduce Figure 2, including the simulation and plotting routines, is available at https://github.com/pachterlab/GP_2020_2.
Funders:
Funding AgencyGrant Number
NIHU19MH114830
Record Number:CaltechAUTHORS:20200928-131238226
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20200928-131238226
Official Citation:Intrinsic and extrinsic noise are distinguishable in a synthesis – export – degradation model of mRNA production. Gennady Gorin, Lior Pachter. bioRxiv 2020.09.25.312868; doi: https://doi.org/10.1101/2020.09.25.312868
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:105587
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:28 Sep 2020 21:09
Last Modified:28 Sep 2020 21:09

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