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 Rv2772c/-

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

	Rv3175/-	Rv2772c/-
Fe_supp_jason_reseq	-0.834	-0.606
low_pH_jason_reseq	1.916	1.404
NO_jason_reseq	0.683	3.573
B6_jason_reseq	-0.048	-0.62
MHCII_jason_reseq	0.534	-0.458
Isoniazid02	0.623	0.054
Rifampicin4	-0.084	1.064
Ethambutol3	0.565	2.083
Meropenem3	1.167	-0.077
Vancomycin16	0.236	0.13
Rv2680_day32	-0.462	-2.522
H37Rv_KO_MarP	-0.322	-0.624
hypoxia_3wks	0.076	0.55
hypoxia_6wks	-0.894	0.033
glycerol	-0.889	0.301
cholesterol	-0.652	-0.047
AJ	-0.657	-0.518
Bibs02	-0.012	-0.559
Bibs02c	0.055	-0.139
BL6	-0.05	0.295
BL6a	-0.161	-0.115
BXD01	0.0	-0.531
BXD010	-0.132	-0.569
BXD011	-0.14	-1.121
BXD03	-0.582	-0.078
BXD04	-0.058	-0.263
BXD05	-0.733	-0.26
BXD06	0.225	-0.311
BXD07	0.044	-1.048
BXD08	-0.036	-0.465
BXD09	-0.605	-1.018
CAST	0.073	-0.806
CCcont	-0.23	0.16
DS01	-0.192	-0.116
DS02	0.057	-0.443
DS04	0.159	-0.08
DS0c	-0.402	-0.462
GP01	-0.28	-1.118
GP02	-1.456	-1.938
GP0c	-0.241	-1.169
NOD	-0.47	-1.814
NZO	-0.897	-1.51
PWK	-0.23	-0.644
H37Rv_KO_CtpC	-0.011	1.409
H37Rv_KO_CtpD	0.185	-1.434
H37Rv_KO_Rv1272	-1.097	-1.294
H37Rv_KO_SugABC	-0.102	-1.145
H37Rv_KO_MbtN	-0.136	-0.946
Trans05	-0.097	-0.698
macrophage_unactivated	0.253	-0.275
IL1	-0.249	-0.35
Rapamycin	0.061	0.608
Tcell	-0.528	1.652
GMCSF	0.528	-0.52
IFNab	-0.094	-1.17
IFNg	0.214	0.561
IFNg_GMCSF1	0.657	0.088
Rv1432_day32	0.609	-0.518
Rv1565c_day32	0.316	0.355
secA2_input	0.322	0.147
delta_Rv3594	-0.835	-0.369
delta_Rv3717	-1.226	-1.699
delta_Rv3811	-1.692	-1.359
delta_Rv0954	-0.444	-0.707
PonA1	-0.422	-0.233
EccD1_KO	0.763	0.112
EspI_KO	0.827	0.128
PE35_KO	0.131	0.198
PPE68_KO	-0.304	0.074
glycerol2	0.077	-0.381
lignocerate	0.144	-0.291
oleate	0.578	-1.07
phosphatidylcholine	0.165	-0.133
acetate	0.281	0.176
glucAc	0.085	0.873
Rv0950ko	-0.305	0.446
Rv1096ko	0.866	0.814
Rv3684ko	1.133	0.226
delta_otsA_trehalose	-0.192	-1.711