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 Rv2579/dhaA:

update plot	correlation	link to info on gene
Rv3238c/-	(cc=0.5305)	info on Rv3238c/-
Rv2770c/PPE44	(cc=0.4747)	info on Rv2770c/PPE44
Rv0654/-	(cc=0.4699)	info on Rv0654/-
Rv3092c/-	(cc=0.4456)	info on Rv3092c/-
Rv1862/adhA	(cc=0.4437)	info on Rv1862/adhA
Rv1844c/gnd1	(cc=0.4369)	info on Rv1844c/gnd1
Rv1915/aceAa	(cc=0.4332)	info on Rv1915/aceAa
Rv3234c/tgs3	(cc=0.4318)	info on Rv3234c/tgs3
Rv1847/-	(cc=0.4307)	info on Rv1847/-
Rv1249c/-	(cc=0.4245)	info on Rv1249c/-

Correlation of Rv2579/dhaA with Rv0654/-

Normalized LFCs for Rv2579/dhaA:
(description and provenance of datasets)

	Rv2579/dhaA	Rv0654/-
Fe_supp_jason_reseq	-0.407	-1.487
low_pH_jason_reseq	-0.845	-2.16
NO_jason_reseq	0.034	0.706
B6_jason_reseq	0.28	-0.841
MHCII_jason_reseq	0.117	-0.807
Isoniazid02	0.655	0.458
Rifampicin4	0.498	-0.263
Ethambutol3	0.878	1.187
Meropenem3	0.079	0.234
Vancomycin16	0.196	-0.308
Rv2680_day32	0.432	0.07
H37Rv_KO_MarP	0.085	0.114
hypoxia_3wks	0.06	-0.144
hypoxia_6wks	-0.077	0.169
glycerol	-0.787	-0.361
cholesterol	-0.824	-0.111
AJ	0.657	0.435
Bibs02	-0.411	0.122
Bibs02c	-0.138	0.426
BL6	0.853	0.212
BL6a	-0.174	-0.095
BXD01	0.0	0.139
BXD010	-0.019	-0.658
BXD011	-0.104	0.296
BXD03	0.152	-0.278
BXD04	-0.286	0.053
BXD05	-0.515	-0.428
BXD06	-0.074	-0.155
BXD07	-0.135	-0.152
BXD08	0.251	0.054
BXD09	-0.224	-0.216
CAST	0.185	0.309
CCcont	0.257	-0.22
DS01	0.503	0.327
DS02	-0.31	0.249
DS04	0.909	0.627
DS0c	0.214	0.547
GP01	0.084	0.208
GP02	1.387	0.613
GP0c	-0.284	0.129
NOD	0.301	0.693
NZO	0.551	0.081
PWK	0.925	0.08
H37Rv_KO_CtpC	-0.056	-0.213
H37Rv_KO_CtpD	-0.025	0.051
H37Rv_KO_Rv1272	0.441	0.049
H37Rv_KO_SugABC	0.436	0.384
H37Rv_KO_MbtN	0.208	0.231
Trans05	-0.073	-0.465
macrophage_unactivated	0.685	0.391
IL1	0.534	0.297
Rapamycin	1.062	0.319
Tcell	0.587	-0.456
GMCSF	0.425	0.684
IFNab	0.311	-0.027
IFNg	0.834	0.425
IFNg_GMCSF1	1.087	0.277
Rv1432_day32	0.36	0.489
Rv1565c_day32	0.169	-0.024
secA2_input	-0.258	0.352
delta_Rv3594	-0.038	-0.148
delta_Rv3717	0.128	-0.277
delta_Rv3811	-0.086	-0.058
delta_Rv0954	0.245	0.318
PonA1	-1.099	-0.373
EccD1_KO	0.309	0.151
EspI_KO	0.222	-0.183
PE35_KO	0.732	-0.694
PPE68_KO	0.458	-0.761
glycerol2	0.622	0.773
lignocerate	0.595	0.561
oleate	0.515	0.851
phosphatidylcholine	0.765	0.664
acetate	0.294	-0.351
glucAc	0.055	-0.288
Rv0950ko	0.021	0.627
Rv1096ko	0.241	0.715
Rv3684ko	-0.046	0.413
delta_otsA_trehalose	-0.585	-0.301