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 Rv1498c/-

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

	Rv1169c/lipX	Rv1498c/-
Fe_supp_jason_reseq	0.079	1.557
low_pH_jason_reseq	0.321	0.499
NO_jason_reseq	0.701	0.339
B6_jason_reseq	-0.978	-0.235
MHCII_jason_reseq	-0.759	-0.081
Isoniazid02	-3.566	-1.26
Rifampicin4	0.458	0.23
Ethambutol3	-3.227	-1.16
Meropenem3	-4.373	-1.318
Vancomycin16	-1.366	-0.806
Rv2680_day32	-0.773	0.016
H37Rv_KO_MarP	0.869	-0.631
hypoxia_3wks	1.619	0.443
hypoxia_6wks	1.806	0.092
glycerol	-1.953	-0.064
cholesterol	0.162	0.441
AJ	1.314	0.402
Bibs02	0.73	0.525
Bibs02c	-0.568	-0.189
BL6	-0.365	0.969
BL6a	0.469	0.65
BXD01	0.429	0.548
BXD010	0.353	1.26
BXD011	-0.065	1.351
BXD03	0.393	0.869
BXD04	0.843	0.713
BXD05	0.736	1.417
BXD06	0.862	0.962
BXD07	-0.011	0.97
BXD08	-0.744	0.654
BXD09	1.031	0.855
CAST	-0.098	-0.35
CCcont	-0.093	0.82
DS01	0.0	0.517
DS02	0.243	-0.391
DS04	0.916	0.817
DS0c	-0.357	0.434
GP01	-0.207	0.704
GP02	1.683	0.51
GP0c	-0.19	0.225
NOD	0.443	1.538
NZO	1.441	0.548
PWK	1.081	0.644
H37Rv_KO_CtpC	0.34	1.414
H37Rv_KO_CtpD	-1.93	0.01
H37Rv_KO_Rv1272	0.799	0.942
H37Rv_KO_SugABC	-1.493	1.369
H37Rv_KO_MbtN	-0.948	0.905
Trans05	1.852	1.564
macrophage_unactivated	0.18	0.404
IL1	0.11	0.08
Rapamycin	-0.721	0.015
Tcell	0.762	0.384
GMCSF	-1.03	-0.071
IFNab	-0.94	0.082
IFNg	0.227	0.633
IFNg_GMCSF1	-0.27	0.54
Rv1432_day32	0.18	0.282
Rv1565c_day32	-4.364	0.646
secA2_input	0.515	-0.233
delta_Rv3594	-0.762	-0.205
delta_Rv3717	-0.863	-0.238
delta_Rv3811	-1.145	-0.691
delta_Rv0954	-2.038	-0.702
PonA1	-1.794	-0.268
EccD1_KO	-0.135	0.865
EspI_KO	-0.878	0.85
PE35_KO	0.808	1.397
PPE68_KO	0.605	1.667
glycerol2	0.611	0.252
lignocerate	0.095	0.818
oleate	-0.098	0.109
phosphatidylcholine	0.618	0.374
acetate	0.454	0.332
glucAc	-0.126	0.76
Rv0950ko	-0.154	0.241
Rv1096ko	-0.953	-0.908
Rv3684ko	-2.053	-0.301
delta_otsA_trehalose	-0.471	-1.361