Reference:

PDF (4.6 MB), supplement (2 MB)
Welcome to SalCom, the HintonLab
Salmonella enterica serovar Typhimurium Gene Expression Compendium
Instructions:  Search by gene, locus or location (multiple entries separated by comma or space).
*To start:   enter query or select Example: ssaGSTM4509prgH,ssaG,mgtC motility genes SPI1 SPI2 SPI1 & 2 effectors SPI3 SPI4 SPI5 SPI6 SPI9 SPI11 SPI12 + oaf O-antigen locus SPI13 SPI14 SPI16 sRNAs

Heatmap for ssaG expression in Kröger et al., 2013

Absolute Expression Levels (transcripts per million)

# query EEP MEP LEP ESP LSP 25C Cold shock (15C) pH3 shock pH5.8 shock NaCl shock Bile shock Low Fe2+ shock Anaerobic shock Anaerobic growth Oxygen shock NonSPI2 InSPI2 InSPI2 LowMg2+ Peroxide shock (InSPI2) Nitric oxide shock (InSPI2) Common gene name Gene Synonym Type Start position (4/74) End position (4/74) Strand Product (EMBL DB) 4-74 ID SL1344 Locus ID
1 ssaG  6 4 10 80 13   3   4 4 4 6 4 7 6   12 10   10 3,244 3,587 1,061 626   ssaG CDS 1446389 1446604 + Type III secretion system apparatus STM474_1412 SL1344_1340

coverage legend

view in JBrowse :view coverage data in JBrowse   download data:download data as tab-delimited text file

Relative Expression Levels (fold-change)

# query EEP MEP LEP ESP LSP MEP Cold shock (15C) pH3 shock pH5.8 shock NaCl shock Bile shock Low Fe2+ shock Anaerobic shock Anaerobic growth Oxygen shock InSPI2 InSPI2 LowMg2+ Peroxide shock (InSPI2) Nitric oxide shock (InSPI2) NonSPI2 InSPI2 Common gene name Gene Synonym Type Start position (4/74) End position (4/74) Strand Product (EMBL DB) 4-74 ID SL1344 Locus ID
1 ssaG  1 1 1 7.98 1.31   1 1 1 1 1 1 1 1   1 0.87   1 1.11 0.33 0.19   1 319.92 ssaG CDS 1446389 1446604 + Type III secretion system apparatus STM474_1412 SL1344_1340

ratio legend

download data:download data as tab-delimited text file

Protocols for Suite of 22 environmental conditions: Excel file, 408KB


Results provided by the Hinton Lab, automatically generated on Sun Oct 26 00:31:21 2014
We are very grateful to Joe Grissom and Tyrrell Conway for sharing the code that drives this compendium database, and was originally designed for use at GenExpDB.