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 Rv3175/-:

update plot	correlation	link to info on gene
Rv2772c/-	(cc=0.4656)	info on Rv2772c/-
Rv0875c/-	(cc=0.4494)	info on Rv0875c/-
Rv0740/-	(cc=0.4435)	info on Rv0740/-
Rv0418/lpqL	(cc=0.437)	info on Rv0418/lpqL
Rv3741c/-	(cc=0.4288)	info on Rv3741c/-
Rv3220c/-	(cc=0.4274)	info on Rv3220c/-
Rv2643/arsC	(cc=0.4258)	info on Rv2643/arsC
Rv3395A/-	(cc=0.4241)	info on Rv3395A/-
Rv3298c/lpqC	(cc=0.4214)	info on Rv3298c/lpqC
Rv0811c/-	(cc=0.4211)	info on Rv0811c/-

Correlation of Rv3175/- with Rv0875c/-

Normalized LFCs for Rv3175/-:
(description and provenance of datasets)

	Rv3175/-	Rv0875c/-
Fe_supp_jason_reseq	-0.834	1.274
low_pH_jason_reseq	1.916	2.844
NO_jason_reseq	0.683	-0.331
B6_jason_reseq	-0.048	0.97
MHCII_jason_reseq	0.534	1.244
Isoniazid02	0.623	0.383
Rifampicin4	-0.084	-0.558
Ethambutol3	0.565	0.415
Meropenem3	1.167	1.899
Vancomycin16	0.236	0.247
Rv2680_day32	-0.462	-1.357
H37Rv_KO_MarP	-0.322	-0.157
hypoxia_3wks	0.076	0.0
hypoxia_6wks	-0.894	-0.263
glycerol	-0.889	-0.686
cholesterol	-0.652	0.722
AJ	-0.657	-0.442
Bibs02	-0.012	1.216
Bibs02c	0.055	-0.711
BL6	-0.05	-0.768
BL6a	-0.161	-0.377
BXD01	0.0	-0.8
BXD010	-0.132	-0.787
BXD011	-0.14	-0.655
BXD03	-0.582	-0.831
BXD04	-0.058	-0.76
BXD05	-0.733	-0.827
BXD06	0.225	-0.351
BXD07	0.044	-0.851
BXD08	-0.036	-0.817
BXD09	-0.605	-0.863
CAST	0.073	-0.284
CCcont	-0.23	-0.285
DS01	-0.192	-1.001
DS02	0.057	-1.336
DS04	0.159	-1.192
DS0c	-0.402	-1.332
GP01	-0.28	-0.607
GP02	-1.456	-0.511
GP0c	-0.241	-0.799
NOD	-0.47	-1.38
NZO	-0.897	-1.225
PWK	-0.23	-0.666
H37Rv_KO_CtpC	-0.011	0.0
H37Rv_KO_CtpD	0.185	-0.537
H37Rv_KO_Rv1272	-1.097	-0.174
H37Rv_KO_SugABC	-0.102	-0.608
H37Rv_KO_MbtN	-0.136	0.166
Trans05	-0.097	-0.672
macrophage_unactivated	0.253	-0.83
IL1	-0.249	-0.78
Rapamycin	0.061	-0.807
Tcell	-0.528	-0.857
GMCSF	0.528	-0.694
IFNab	-0.094	-0.795
IFNg	0.214	-0.703
IFNg_GMCSF1	0.657	-0.826
Rv1432_day32	0.609	0.0
Rv1565c_day32	0.316	0.13
secA2_input	0.322	2.678
delta_Rv3594	-0.835	-0.855
delta_Rv3717	-1.226	0.064
delta_Rv3811	-1.692	-0.831
delta_Rv0954	-0.444	0.618
PonA1	-0.422	-0.931
EccD1_KO	0.763	0.306
EspI_KO	0.827	2.567
PE35_KO	0.131	0.137
PPE68_KO	-0.304	0.15
glycerol2	0.077	-0.531
lignocerate	0.144	-0.462
oleate	0.578	-0.537
phosphatidylcholine	0.165	-0.531
acetate	0.281	0.178
glucAc	0.085	-0.392
Rv0950ko	-0.305	-0.89
Rv1096ko	0.866	0.0
Rv3684ko	1.133	0.802
delta_otsA_trehalose	-0.192	1.33