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 Rv0399c/lpqK

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

	Rv1169c/lipX	Rv0399c/lpqK
Fe_supp_jason_reseq	0.079	0.215
low_pH_jason_reseq	0.321	0.087
NO_jason_reseq	0.701	0.522
B6_jason_reseq	-0.978	0.114
MHCII_jason_reseq	-0.759	0.21
Isoniazid02	-3.566	-3.51
Rifampicin4	0.458	0.764
Ethambutol3	-3.227	-2.908
Meropenem3	-4.373	-2.207
Vancomycin16	-1.366	-1.08
Rv2680_day32	-0.773	-0.648
H37Rv_KO_MarP	0.869	-0.277
hypoxia_3wks	1.619	0.375
hypoxia_6wks	1.806	1.054
glycerol	-1.953	0.107
cholesterol	0.162	0.349
AJ	1.314	0.153
Bibs02	0.73	-0.076
Bibs02c	-0.568	1.291
BL6	-0.365	-0.052
BL6a	0.469	0.936
BXD01	0.429	0.069
BXD010	0.353	0.39
BXD011	-0.065	-0.185
BXD03	0.393	0.695
BXD04	0.843	0.244
BXD05	0.736	0.488
BXD06	0.862	0.018
BXD07	-0.011	0.091
BXD08	-0.744	0.444
BXD09	1.031	0.0
CAST	-0.098	0.062
CCcont	-0.093	-0.127
DS01	0.0	0.544
DS02	0.243	-0.121
DS04	0.916	0.966
DS0c	-0.357	0.523
GP01	-0.207	-0.144
GP02	1.683	-0.527
GP0c	-0.19	0.018
NOD	0.443	1.193
NZO	1.441	-0.027
PWK	1.081	0.129
H37Rv_KO_CtpC	0.34	0.086
H37Rv_KO_CtpD	-1.93	1.419
H37Rv_KO_Rv1272	0.799	-0.079
H37Rv_KO_SugABC	-1.493	0.683
H37Rv_KO_MbtN	-0.948	0.215
Trans05	1.852	0.052
macrophage_unactivated	0.18	-0.363
IL1	0.11	-0.78
Rapamycin	-0.721	0.381
Tcell	0.762	0.176
GMCSF	-1.03	0.327
IFNab	-0.94	-0.662
IFNg	0.227	-0.051
IFNg_GMCSF1	-0.27	0.443
Rv1432_day32	0.18	0.082
Rv1565c_day32	-4.364	0.269
secA2_input	0.515	0.312
delta_Rv3594	-0.762	0.057
delta_Rv3717	-0.863	0.115
delta_Rv3811	-1.145	-0.028
delta_Rv0954	-2.038	-0.96
PonA1	-1.794	-0.112
EccD1_KO	-0.135	0.161
EspI_KO	-0.878	0.274
PE35_KO	0.808	0.236
PPE68_KO	0.605	0.259
glycerol2	0.611	0.238
lignocerate	0.095	0.524
oleate	-0.098	0.631
phosphatidylcholine	0.618	0.496
acetate	0.454	0.535
glucAc	-0.126	0.349
Rv0950ko	-0.154	0.048
Rv1096ko	-0.953	0.745
Rv3684ko	-2.053	-0.321
delta_otsA_trehalose	-0.471	0.178