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 Rv2424c/-:

update plot	correlation	link to info on gene
Rv1367c/-	(cc=0.5961)	info on Rv1367c/-
Rv3055/-	(cc=0.5948)	info on Rv3055/-
Rv2786c/ribF	(cc=0.5633)	info on Rv2786c/ribF
Rv2177c/-	(cc=0.5495)	info on Rv2177c/-
Rv1250/-	(cc=0.5155)	info on Rv1250/-
Rv2980/-	(cc=0.5125)	info on Rv2980/-
Rv0520/-	(cc=0.5123)	info on Rv0520/-
Rv2915c/-	(cc=0.5113)	info on Rv2915c/-
Rv0895/-	(cc=0.5109)	info on Rv0895/-
Rv1735c/-	(cc=0.5061)	info on Rv1735c/-

Correlation of Rv2424c/- with Rv0895/-

Normalized LFCs for Rv2424c/-:
(description and provenance of datasets)

	Rv2424c/-	Rv0895/-
Fe_supp_jason_reseq	-0.701	-0.625
low_pH_jason_reseq	-1.082	-1.121
NO_jason_reseq	0.349	-0.583
B6_jason_reseq	0.996	0.36
MHCII_jason_reseq	-0.668	-0.008
Isoniazid02	-0.18	-0.565
Rifampicin4	0.875	0.661
Ethambutol3	0.573	-0.19
Meropenem3	0.659	0.655
Vancomycin16	0.645	0.117
Rv2680_day32	0.043	0.213
H37Rv_KO_MarP	0.676	0.294
hypoxia_3wks	-0.167	0.227
hypoxia_6wks	0.121	0.267
glycerol	-1.287	0.129
cholesterol	-0.457	0.287
AJ	0.913	0.213
Bibs02	-0.148	0.4
Bibs02c	0.196	0.164
BL6	0.455	-0.282
BL6a	-0.29	-0.092
BXD01	-0.276	-0.245
BXD010	-0.559	-0.416
BXD011	-0.513	-0.477
BXD03	-0.213	-0.375
BXD04	0.063	-0.263
BXD05	-0.628	-0.143
BXD06	-0.469	-0.02
BXD07	-0.288	-0.384
BXD08	-0.209	-0.007
BXD09	-0.242	-0.166
CAST	0.295	0.953
CCcont	-1.203	-0.625
DS01	0.33	0.775
DS02	0.775	0.824
DS04	0.864	0.479
DS0c	0.412	0.955
GP01	0.121	-0.111
GP02	0.333	0.084
GP0c	0.623	-0.496
NOD	0.413	0.387
NZO	0.909	0.146
PWK	0.645	0.57
H37Rv_KO_CtpC	-0.184	-0.377
H37Rv_KO_CtpD	-0.777	-0.579
H37Rv_KO_Rv1272	-0.222	-0.391
H37Rv_KO_SugABC	-0.344	-0.243
H37Rv_KO_MbtN	-1.569	-0.232
Trans05	1.084	-0.547
macrophage_unactivated	-0.407	-0.84
IL1	-1.1	0.172
Rapamycin	-0.93	0.227
Tcell	-0.479	0.026
GMCSF	0.098	-0.322
IFNab	-0.937	-0.236
IFNg	-0.69	0.342
IFNg_GMCSF1	0.148	0.079
Rv1432_day32	-0.03	-0.076
Rv1565c_day32	0.215	0.594
secA2_input	0.941	0.036
delta_Rv3594	-0.72	-0.629
delta_Rv3717	-0.865	0.033
delta_Rv3811	-0.769	-0.207
delta_Rv0954	-1.039	-0.017
PonA1	-0.256	0.554
EccD1_KO	2.559	0.539
EspI_KO	1.657	1.323
PE35_KO	1.173	0.478
PPE68_KO	1.654	0.637
glycerol2	0.184	0.154
lignocerate	0.183	0.145
oleate	0.604	0.169
phosphatidylcholine	0.794	0.251
acetate	0.357	0.0
glucAc	-0.149	0.492
Rv0950ko	-0.069	-0.302
Rv1096ko	-0.187	0.341
Rv3684ko	-0.334	-0.557
delta_otsA_trehalose	-0.098	-0.358