TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv2589/gabT:

update plot	correlation	link to info on gene
Rv0254c/cobU	(cc=0.4721)	info on Rv0254c/cobU
Rv3502c/-	(cc=0.4448)	info on Rv3502c/-
Rv1405c/-	(cc=0.4431)	info on Rv1405c/-
Rv3564/fadE33	(cc=0.4312)	info on Rv3564/fadE33
Rv2390c/-	(cc=0.4269)	info on Rv2390c/-
Rv3570c/hsaA	(cc=0.4206)	info on Rv3570c/hsaA
Rv0485/-	(cc=0.4164)	info on Rv0485/-
Rv3542c/-	(cc=0.4163)	info on Rv3542c/-
Rv3104c/-	(cc=0.411)	info on Rv3104c/-
Rv3779/-	(cc=0.4073)	info on Rv3779/-

Correlation of Rv2589/gabT with Rv2390c/-

Normalized LFCs for Rv2589/gabT:
(description and provenance of datasets)

	Rv2589/gabT	Rv2390c/-
Fe_supp_jason_reseq	0.268	0.204
low_pH_jason_reseq	-0.323	-0.433
NO_jason_reseq	-0.244	0.27
B6_jason_reseq	-0.461	-0.542
MHCII_jason_reseq	-0.226	-0.671
Isoniazid02	0.167	-1.177
Rifampicin4	0.07	0.506
Ethambutol3	-0.516	-1.234
Meropenem3	-0.581	-1.096
Vancomycin16	0.024	-0.891
Rv2680_day32	-0.017	0.664
H37Rv_KO_MarP	0.178	0.093
hypoxia_3wks	0.646	-0.068
hypoxia_6wks	0.042	0.255
glycerol	0.93	-0.123
cholesterol	0.512	-0.102
AJ	-0.235	-0.765
Bibs02	-0.55	0.601
Bibs02c	-1.166	-0.788
BL6	-0.167	1.199
BL6a	-0.316	0.419
BXD01	-0.315	0.711
BXD010	-0.291	0.714
BXD011	-0.052	1.144
BXD03	-0.087	0.824
BXD04	0.767	0.942
BXD05	0.145	0.753
BXD06	-0.135	0.6
BXD07	-0.016	0.825
BXD08	-0.238	0.766
BXD09	0.473	0.867
CAST	-1.049	0.389
CCcont	0.491	0.531
DS01	-0.915	-0.484
DS02	0.526	-0.147
DS04	-0.918	-0.017
DS0c	-0.787	-0.082
GP01	0.584	1.229
GP02	0.051	1.336
GP0c	0.372	0.79
NOD	0.503	-0.469
NZO	-0.253	0.318
PWK	0.328	0.337
H37Rv_KO_CtpC	-0.238	0.306
H37Rv_KO_CtpD	0.785	1.358
H37Rv_KO_Rv1272	0.223	1.097
H37Rv_KO_SugABC	-0.621	1.031
H37Rv_KO_MbtN	-0.085	0.291
Trans05	0.072	0.841
macrophage_unactivated	0.975	0.073
IL1	0.946	0.825
Rapamycin	0.764	0.899
Tcell	-0.525	-0.368
GMCSF	0.301	0.488
IFNab	0.378	-0.039
IFNg	0.703	0.759
IFNg_GMCSF1	0.408	0.804
Rv1432_day32	-0.087	0.185
Rv1565c_day32	0.022	0.622
secA2_input	-0.405	-0.258
delta_Rv3594	0.191	0.101
delta_Rv3717	-0.408	0.058
delta_Rv3811	-0.239	-0.448
delta_Rv0954	0.364	0.391
PonA1	0.749	0.641
EccD1_KO	-0.556	-0.95
EspI_KO	-0.337	-0.117
PE35_KO	-0.761	-1.114
PPE68_KO	-0.877	-0.873
glycerol2	0.06	0.258
lignocerate	0.33	1.139
oleate	0.457	0.383
phosphatidylcholine	0.052	1.062
acetate	0.208	0.178
glucAc	0.575	0.666
Rv0950ko	0.706	1.179
Rv1096ko	0.41	0.329
Rv3684ko	0.766	0.187
delta_otsA_trehalose	-0.383	0.697