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 Rv1910c/-:

update plot	correlation	link to info on gene
Rv2325c/-	(cc=0.5176)	info on Rv2325c/-
Rv1074c/fadA3	(cc=0.4564)	info on Rv1074c/fadA3
Rv2007c/fdxA	(cc=0.4417)	info on Rv2007c/fdxA
Rv1027c/kdpE	(cc=0.4393)	info on Rv1027c/kdpE
Rv1863c/-	(cc=0.4283)	info on Rv1863c/-
Rv2787/-	(cc=0.4264)	info on Rv2787/-
Rv1852/ureG	(cc=0.4227)	info on Rv1852/ureG
Rv3647c/-	(cc=0.4124)	info on Rv3647c/-
Rv2308/-	(cc=0.4062)	info on Rv2308/-
Rv3742c/-	(cc=0.4052)	info on Rv3742c/-

Correlation of Rv1910c/- with Rv2325c/-

Normalized LFCs for Rv1910c/-:
(description and provenance of datasets)

	Rv1910c/-	Rv2325c/-
Fe_supp_jason_reseq	0.387	0.366
low_pH_jason_reseq	-0.726	-1.285
NO_jason_reseq	0.202	-0.801
B6_jason_reseq	0.777	0.169
MHCII_jason_reseq	-0.341	-0.355
Isoniazid02	-0.824	0.175
Rifampicin4	-0.062	-0.173
Ethambutol3	0.178	-0.105
Meropenem3	0.761	0.298
Vancomycin16	0.178	-0.472
Rv2680_day32	-0.585	-0.923
H37Rv_KO_MarP	-0.255	-0.423
hypoxia_3wks	-0.163	0.646
hypoxia_6wks	0.351	0.867
glycerol	0.193	0.0
cholesterol	0.132	-0.228
AJ	-0.119	0.055
Bibs02	-0.297	-0.564
Bibs02c	-0.558	0.194
BL6	0.459	1.552
BL6a	0.296	0.62
BXD01	-0.234	-0.633
BXD010	-0.245	-0.276
BXD011	-0.134	-0.2
BXD03	-0.405	0.708
BXD04	0.667	0.911
BXD05	-0.179	1.158
BXD06	0.091	0.182
BXD07	-0.291	-1.037
BXD08	-0.38	-0.932
BXD09	0.021	0.162
CAST	0.035	0.881
CCcont	-0.322	0.969
DS01	-0.63	0.421
DS02	-0.592	0.25
DS04	0.987	0.306
DS0c	0.011	0.756
GP01	0.185	-1.02
GP02	-0.454	0.424
GP0c	0.328	0.623
NOD	0.652	2.05
NZO	0.172	0.624
PWK	0.266	0.182
H37Rv_KO_CtpC	0.235	2.11
H37Rv_KO_CtpD	0.564	1.764
H37Rv_KO_Rv1272	0.609	-0.988
H37Rv_KO_SugABC	0.485	1.34
H37Rv_KO_MbtN	0.14	1.857
Trans05	1.551	1.786
macrophage_unactivated	0.155	0.985
IL1	0.374	0.285
Rapamycin	0.887	0.957
Tcell	-0.036	0.238
GMCSF	0.591	1.545
IFNab	-0.55	1.868
IFNg	0.283	0.257
IFNg_GMCSF1	0.38	0.654
Rv1432_day32	0.456	0.192
Rv1565c_day32	-0.539	-0.766
secA2_input	0.053	0.243
delta_Rv3594	0.197	-0.907
delta_Rv3717	0.136	-0.42
delta_Rv3811	-0.068	0.068
delta_Rv0954	-0.059	-0.193
PonA1	0.108	-0.409
EccD1_KO	-0.355	-0.549
EspI_KO	0.0	0.188
PE35_KO	0.484	0.0
PPE68_KO	0.205	0.278
glycerol2	0.736	0.772
lignocerate	1.068	1.698
oleate	0.122	-0.604
phosphatidylcholine	1.015	0.804
acetate	0.384	1.302
glucAc	0.499	1.505
Rv0950ko	0.169	1.788
Rv1096ko	0.528	0.986
Rv3684ko	0.779	0.531
delta_otsA_trehalose	2.032	3.058