Transcriptomic Analysis of Rnq1 Loss and Prionization: Effects on Translation Pathways and Energy Metabolism

Prion proteins can undergo self-perpetuating conformational changes that alter their functions. One such protein, Rnq1, is unknown for its physiological functions. We conducted RNA-seq experiments to compare the effects of Rnq1 depletion and prionization. This dataset includes summary of the sequencing data, especially information on differentially expressed genes (DEGs).

Description of the data/file structure

The three supplemental tables have similar data structues, containing summarized RNA-seq results generated with a standard pipeline. These files are in .CVS format and can be opened with Excel or similar software. Table S1_RM vs WT is for DEGs between Rnq1 depletion and wildtype non-prion strains; Table S2_RP vs WT is for DEGs between Rnq1 prion and wildtype strains; Table S3_RP vs RM is for Rnq1 prion and depletion strains. 

Variables

Systematic Name: Yeast systematic gene name

Standard Name: Standard gene name

Allias: other name

Chr: chromosome

Start: gene start position

End: gene end position 

width: Gene size in base pairs

Strand: forward or complementary strand

LL.RM1: Rnq1 depletion mutant sample 1

LL.RM2: Rnq1 depletion mutant sample 2

LL.RM3: Rnq1 depletion mutant sample 3

RP1: Rnq1 prion sample 1

RP2: Rnq1 prion sample 2

RP3: Rnq1 prion sample 3

LL.CK1: wildtype non-prion sample 1

LL.CK2: wildtype non-prion sample 2

LL.CK3: wildtype non-prion sample 3

meanRM: average reads of Rnq1 depletion mutant samples

meanRP: average reads of Rnq1 prion samples

meanWT: average reads of Wildtype non-prion samples

FC: fold change

logFC: log(fold change)

log(adjP)abs: log value of adjusted P

meanALL: average of all

STDEVall: STDEV

logCPM: log value of count per million

LR: system value from the pipeline 

PValue: P value

adj.p: adjusted P value

up: upregulated based on the cutoff criteria

dn: downregulated based on the cutoff criteria

biotype: Feature type of gene

description: gene function description