Data mining for traffic information



Clague, Michael J ORCID: 0000-0003-3355-9479 and Urbe, Sylvie ORCID: 0000-0003-4735-9814
(2020) Data mining for traffic information. TRAFFIC, 21 (1). pp. 162-168.

[img] Text
Clague-Urbe-2019-tra.12702.pdf - Author Accepted Manuscript

Download (1MB) | Preview

Abstract

Modern cell biology is now rich with data acquired at the whole genome and proteome level. We can add value to this data through integration and application of specialist knowledge. To illustrate, we will focus on the SNARE and RAB proteins; key regulators of intracellular fusion specificity and organelle identity. We examine published mass spectrometry data to gain an estimate of protein copy number and organelle distribution in HeLa cells for each family member. We also survey recent global CRISPR/Cas9 screens for essential genes from these families. We highlight instances of co-essentiality with other genes across a large panel of cell lines that allows for the identification of functionally coherent clusters. Examples of such correlations include RAB10 with the SNARE protein Syntaxin4 (STX4) and RAB7/RAB21 with the WASH and the CCC (COMMD/CCDC22/CCDC93) complexes, both of which are linked to endosomal recycling pathways.

Item Type: Article
Uncontrolled Keywords: CRISPR, essential genes, proteomics, RAB, SNARE
Depositing User: Symplectic Admin
Date Deposited: 18 Nov 2019 10:11
Last Modified: 19 Jan 2023 00:20
DOI: 10.1111/tra.12702
Related URLs:
URI: https://livrepository.liverpool.ac.uk/id/eprint/3061796