Reference:
Welcome to SalComRegulon, the HintonLab
Salmonella enterica serovar Typhimurium Gene Expression Compendium
Columns of the Heat Maps can be sorted by value - just click on the headers
(° rotated)
Instructions:  Search by gene, locus or location (multiple entries separated by comma or space).
*To start:  enter query or select Examples: ssaGSTM4509prgH,ssaG,mgtCmotility genesSPI1SPI2SPI1 & 2 effectors
SPI3SPI4SPI5SPI6SPI9SPI11SPI12 + oaf O-antigen locusSPI13SPI14SPI16sRNAs
Top 100 up- and down-regulated genes in knock-out mutants:
ΔdamΔhilAΔhilCΔhilDΔhilEΔhilD ESPΔbarA/SirAΔfliZΔfurΔhfqΔrpoEΔrpoSΔhilD InSPI2ΔphoB/RΔphoP/QΔompR/EnvZΔslyAΔssrAΔssrBΔssrA/B

Heatmap for ssaG expression in strain 4/74 Colgan et al., 2016

Absolute Expression Levels (transcripts per million)

query
WT MEP
Δdam MEP
WT IEP
ΔhilA IEP
ΔhilC IEP
ΔhilD IEP
ΔhilE IEP
WT ESP
ΔhilD ESP
ΔbarA-sirA ESP
ΔfliZ ESP
Δfur ESP
Δhfq ESP
WT LSP
ΔrpoE LSP
ΔrpoS LSP
WT InSPI2
ΔhilD InSPI2
ΔphoB-R InSPI2
ΔphoP-Q InSPI2
ΔompR-envZ InSPI2
ΔslyA InSPI2
ΔssrA InSPI2
ΔssrB InSPI2
ΔssrA-B 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
ssaG  4 2   2 5 3 5 7   88 4 2 15 183 9   11 16 471   3,309 2,441 3,559 174 5 32 19 7 7    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
WT MEP
WT vs Δdam
WT IEP
WT vs ΔhilA
WT vs ΔhilC
WT vs ΔhilD
WT vs ΔhilE
WT ESP
WT vs ΔhilD
WT vs ΔbarA-sirA
WT vs ΔfliZ
WT vs Δfur
WT vs Δhfq
WT LSP
WT vs ΔrpoE
WT vs ΔrpoS
WT InSPI2
WT vs ΔhilD InSPI2
WT vs ΔphoB-R
WT vs ΔphoP-Q
WT vs ΔompR-envZ
WT vs ΔslyA
WT vs ΔssrA
WT vs ΔssrB
WT vs ΔssrA-B
     Common gene name Gene Synonym Type Start position (4/74) End position (4/74) Strand Product (EMBL DB) 4-74 ID SL1344 Locus ID
ssaG  1 1   1 1 1 1 1   1 0.11 0.11 0.17 2.07 0.11   1 1.4 41.13   1 0.74 1.08 0.05 0 0.01 0.01 0 0    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 Wed Sep 26 10:50:31 2018
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.