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 Rv1169c/lipX:

update plot	correlation	link to info on gene
Rv0940c/-	(cc=0.5799)	info on Rv0940c/-
Rv2639c/-	(cc=0.567)	info on Rv2639c/-
Rv0868c/moaD2	(cc=0.5571)	info on Rv0868c/moaD2
Rv1498c/-	(cc=0.5267)	info on Rv1498c/-
Rv0934/pstS1	(cc=0.5252)	info on Rv0934/pstS1
Rv2947c/pks15	(cc=0.5197)	info on Rv2947c/pks15
Rv2501c/accA1	(cc=0.5133)	info on Rv2501c/accA1
Rv0932c/pstS2	(cc=0.5118)	info on Rv0932c/pstS2
Rv0115/hddA	(cc=0.5022)	info on Rv0115/hddA
Rv0399c/lpqK	(cc=0.4945)	info on Rv0399c/lpqK

Correlation of Rv1169c/lipX with Rv0932c/pstS2

Normalized LFCs for Rv1169c/lipX:
(description and provenance of datasets)

	Rv1169c/lipX	Rv0932c/pstS2
Fe_supp_jason_reseq	0.079	-0.226
low_pH_jason_reseq	0.321	0.065
NO_jason_reseq	0.701	0.315
B6_jason_reseq	-0.978	0.937
MHCII_jason_reseq	-0.759	-0.494
Isoniazid02	-3.566	-1.042
Rifampicin4	0.458	0.485
Ethambutol3	-3.227	-1.279
Meropenem3	-4.373	-1.144
Vancomycin16	-1.366	-0.605
Rv2680_day32	-0.773	0.893
H37Rv_KO_MarP	0.869	-0.707
hypoxia_3wks	1.619	0.152
hypoxia_6wks	1.806	0.487
glycerol	-1.953	-0.097
cholesterol	0.162	-0.03
AJ	1.314	0.118
Bibs02	0.73	-0.118
Bibs02c	-0.568	-0.17
BL6	-0.365	0.714
BL6a	0.469	0.664
BXD01	0.429	0.494
BXD010	0.353	0.668
BXD011	-0.065	0.876
BXD03	0.393	0.862
BXD04	0.843	0.896
BXD05	0.736	1.086
BXD06	0.862	0.825
BXD07	-0.011	0.659
BXD08	-0.744	1.148
BXD09	1.031	0.715
CAST	-0.098	1.051
CCcont	-0.093	0.169
DS01	0.0	0.354
DS02	0.243	0.394
DS04	0.916	0.606
DS0c	-0.357	0.539
GP01	-0.207	0.278
GP02	1.683	0.279
GP0c	-0.19	0.189
NOD	0.443	0.719
NZO	1.441	0.584
PWK	1.081	1.178
H37Rv_KO_CtpC	0.34	0.138
H37Rv_KO_CtpD	-1.93	0.361
H37Rv_KO_Rv1272	0.799	1.144
H37Rv_KO_SugABC	-1.493	0.855
H37Rv_KO_MbtN	-0.948	0.752
Trans05	1.852	0.983
macrophage_unactivated	0.18	0.344
IL1	0.11	-0.101
Rapamycin	-0.721	-0.071
Tcell	0.762	-0.094
GMCSF	-1.03	0.465
IFNab	-0.94	-0.193
IFNg	0.227	0.575
IFNg_GMCSF1	-0.27	0.157
Rv1432_day32	0.18	1.05
Rv1565c_day32	-4.364	-0.578
secA2_input	0.515	0.11
delta_Rv3594	-0.762	0.057
delta_Rv3717	-0.863	0.428
delta_Rv3811	-1.145	0.077
delta_Rv0954	-2.038	-0.019
PonA1	-1.794	0.157
EccD1_KO	-0.135	0.464
EspI_KO	-0.878	0.784
PE35_KO	0.808	0.239
PPE68_KO	0.605	0.304
glycerol2	0.611	0.44
lignocerate	0.095	0.168
oleate	-0.098	0.225
phosphatidylcholine	0.618	-0.311
acetate	0.454	0.1
glucAc	-0.126	-0.166
Rv0950ko	-0.154	0.036
Rv1096ko	-0.953	-0.389
Rv3684ko	-2.053	0.02
delta_otsA_trehalose	-0.471	-0.266