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 Rv1373/-:

update plot	correlation	link to info on gene
Rv0231/fadE4	(cc=0.6293)	info on Rv0231/fadE4
Rv3840/-	(cc=0.5898)	info on Rv3840/-
Rv2390c/-	(cc=0.5798)	info on Rv2390c/-
Rv3397c/phyA	(cc=0.5554)	info on Rv3397c/phyA
Rv0831c/-	(cc=0.5434)	info on Rv0831c/-
Rv1923/lipD	(cc=0.5376)	info on Rv1923/lipD
Rv1500/-	(cc=0.5352)	info on Rv1500/-
Rv0160c/PE4	(cc=0.5322)	info on Rv0160c/PE4
Rv3324c/moaC3	(cc=0.5279)	info on Rv3324c/moaC3
Rv0975c/fadE13	(cc=0.5218)	info on Rv0975c/fadE13

Correlation of Rv1373/- with Rv0975c/fadE13

Normalized LFCs for Rv1373/-:
(description and provenance of datasets)

	Rv1373/-	Rv0975c/fadE13
Fe_supp_jason_reseq	-0.068	-0.218
low_pH_jason_reseq	-0.259	0.487
NO_jason_reseq	-0.037	-0.42
B6_jason_reseq	0.623	0.689
MHCII_jason_reseq	0.244	-0.307
Isoniazid02	-0.882	-1.707
Rifampicin4	-0.409	-0.59
Ethambutol3	-1.194	-1.673
Meropenem3	-0.418	-1.273
Vancomycin16	-0.61	-1.236
Rv2680_day32	0.114	-1.274
H37Rv_KO_MarP	0.257	-0.22
hypoxia_3wks	-0.02	0.112
hypoxia_6wks	0.167	-0.399
glycerol	-0.335	0.715
cholesterol	-0.043	0.269
AJ	0.439	0.413
Bibs02	-0.183	0.819
Bibs02c	-0.306	0.823
BL6	0.607	0.06
BL6a	0.065	0.485
BXD01	0.35	0.512
BXD010	0.702	0.01
BXD011	0.907	0.147
BXD03	0.698	-0.238
BXD04	0.755	-0.062
BXD05	0.241	0.429
BXD06	0.513	0.441
BXD07	0.067	0.561
BXD08	0.514	0.367
BXD09	0.532	0.12
CAST	0.529	1.138
CCcont	0.136	0.138
DS01	0.058	1.069
DS02	-0.392	0.052
DS04	0.2	0.512
DS0c	0.105	0.035
GP01	0.44	0.463
GP02	1.553	1.541
GP0c	0.518	0.877
NOD	1.183	0.809
NZO	0.364	0.185
PWK	0.111	-0.148
H37Rv_KO_CtpC	0.215	0.498
H37Rv_KO_CtpD	0.648	-0.01
H37Rv_KO_Rv1272	0.48	0.697
H37Rv_KO_SugABC	0.915	0.39
H37Rv_KO_MbtN	0.345	1.526
Trans05	1.058	0.112
macrophage_unactivated	0.262	0.268
IL1	0.578	0.463
Rapamycin	0.847	0.344
Tcell	0.401	0.479
GMCSF	0.525	0.481
IFNab	0.0	0.227
IFNg	0.543	0.027
IFNg_GMCSF1	0.233	0.267
Rv1432_day32	-0.378	0.428
Rv1565c_day32	-0.201	-0.643
secA2_input	-0.29	-0.081
delta_Rv3594	0.675	-0.312
delta_Rv3717	0.028	-0.37
delta_Rv3811	0.097	-0.507
delta_Rv0954	0.075	-0.818
PonA1	0.067	0.01
EccD1_KO	-0.105	0.654
EspI_KO	0.177	0.448
PE35_KO	0.073	-0.286
PPE68_KO	0.198	-0.873
glycerol2	0.567	0.617
lignocerate	0.588	0.464
oleate	0.656	0.671
phosphatidylcholine	0.774	0.51
acetate	0.108	-0.075
glucAc	0.023	-0.047
Rv0950ko	0.802	0.585
Rv1096ko	0.214	1.01
Rv3684ko	0.419	0.891
delta_otsA_trehalose	-0.693	-0.237