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 Rv0305c/PPE6:

update plot	correlation	link to info on gene
Rv1917c/PPE34	(cc=0.6677)	info on Rv1917c/PPE34
Rv1918c/PPE35	(cc=0.6401)	info on Rv1918c/PPE35
Rv2735c/-	(cc=0.6291)	info on Rv2735c/-
Rv1500/-	(cc=0.6116)	info on Rv1500/-
Rv2338c/moeW	(cc=0.6041)	info on Rv2338c/moeW
Rv3796/-	(cc=0.5975)	info on Rv3796/-
Rv2430c/PPE41	(cc=0.5849)	info on Rv2430c/PPE41
Rv3382c/lytB1	(cc=0.584)	info on Rv3382c/lytB1
Rv0469/umaA	(cc=0.5786)	info on Rv0469/umaA
Rv1585c/-	(cc=0.5774)	info on Rv1585c/-

Correlation of Rv0305c/PPE6 with Rv2338c/moeW

Normalized LFCs for Rv0305c/PPE6:
(description and provenance of datasets)

	Rv0305c/PPE6	Rv2338c/moeW
Fe_supp_jason_reseq	0.584	1.904
low_pH_jason_reseq	-0.248	0.425
NO_jason_reseq	-0.333	1.126
B6_jason_reseq	-0.199	0.429
MHCII_jason_reseq	0.274	0.0
Isoniazid02	-0.374	-0.038
Rifampicin4	0.133	0.138
Ethambutol3	0.022	0.235
Meropenem3	0.488	-0.266
Vancomycin16	-0.255	-0.358
Rv2680_day32	-0.065	-0.891
H37Rv_KO_MarP	-0.106	-0.6
hypoxia_3wks	0.195	0.116
hypoxia_6wks	-0.104	-0.251
glycerol	-0.252	-0.731
cholesterol	-0.306	-0.115
AJ	0.506	0.529
Bibs02	0.13	-0.534
Bibs02c	0.247	0.053
BL6	0.258	0.453
BL6a	0.373	0.646
BXD01	0.345	0.766
BXD010	0.176	0.343
BXD011	0.352	0.614
BXD03	0.263	0.715
BXD04	0.162	0.307
BXD05	0.679	0.626
BXD06	0.201	0.621
BXD07	0.145	0.644
BXD08	0.476	0.482
BXD09	0.364	0.677
CAST	0.611	0.379
CCcont	0.096	0.341
DS01	0.558	0.229
DS02	0.501	0.941
DS04	0.401	0.0
DS0c	0.46	-0.563
GP01	0.546	-0.323
GP02	0.609	0.172
GP0c	0.212	0.242
NOD	1.365	1.765
NZO	0.4	0.147
PWK	0.166	0.098
H37Rv_KO_CtpC	0.431	-0.647
H37Rv_KO_CtpD	1.852	1.709
H37Rv_KO_Rv1272	1.229	1.223
H37Rv_KO_SugABC	1.067	0.428
H37Rv_KO_MbtN	0.798	0.373
Trans05	0.903	0.711
macrophage_unactivated	0.846	0.338
IL1	-0.208	0.08
Rapamycin	0.0	-1.053
Tcell	0.925	0.0
GMCSF	0.275	0.071
IFNab	-0.151	-0.828
IFNg	0.561	-0.473
IFNg_GMCSF1	0.06	-0.968
Rv1432_day32	0.026	0.034
Rv1565c_day32	-0.13	-0.066
secA2_input	-0.621	-0.435
delta_Rv3594	0.0	-0.205
delta_Rv3717	-0.39	-0.214
delta_Rv3811	-0.097	0.47
delta_Rv0954	-0.465	-0.129
PonA1	0.045	0.394
EccD1_KO	-0.743	-0.086
EspI_KO	-0.627	-1.415
PE35_KO	-0.642	-0.753
PPE68_KO	-0.598	-0.083
glycerol2	-0.136	-0.307
lignocerate	-0.078	-0.434
oleate	-0.138	0.379
phosphatidylcholine	0.011	0.062
acetate	-0.474	-0.64
glucAc	-0.345	-0.628
Rv0950ko	0.911	0.874
Rv1096ko	-0.208	-0.971
Rv3684ko	0.098	-0.216
delta_otsA_trehalose	-0.191	-0.342