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 Rv1586c/-:

update plot	correlation	link to info on gene
Rv1587c/-	(cc=0.4869)	info on Rv1587c/-
Rv2695/-	(cc=0.426)	info on Rv2695/-
Rv3740c/-	(cc=0.4236)	info on Rv3740c/-
Rv0134/ephF	(cc=0.4063)	info on Rv0134/ephF
Rv2974c/-	(cc=0.4058)	info on Rv2974c/-
Rv3681c/whiB4	(cc=0.3923)	info on Rv3681c/whiB4
Rv3026c/-	(cc=0.3916)	info on Rv3026c/-
Rv3440c/-	(cc=0.3904)	info on Rv3440c/-
Rv3606c/folK	(cc=0.3901)	info on Rv3606c/folK
Rv1927/-	(cc=0.39)	info on Rv1927/-

Correlation of Rv1586c/- with Rv3681c/whiB4

Normalized LFCs for Rv1586c/-:
(description and provenance of datasets)

	Rv1586c/-	Rv3681c/whiB4
Fe_supp_jason_reseq	0.35	1.312
low_pH_jason_reseq	-1.119	-0.467
NO_jason_reseq	-0.147	-0.27
B6_jason_reseq	0.048	0.012
MHCII_jason_reseq	0.621	0.812
Isoniazid02	-0.32	-0.732
Rifampicin4	0.753	0.449
Ethambutol3	-0.197	-0.207
Meropenem3	0.696	0.156
Vancomycin16	-0.244	-0.109
Rv2680_day32	-0.367	-1.094
H37Rv_KO_MarP	-0.152	0.649
hypoxia_3wks	-0.451	0.04
hypoxia_6wks	-0.405	-0.15
glycerol	0.351	-0.028
cholesterol	0.074	0.644
AJ	0.136	0.403
Bibs02	0.784	0.514
Bibs02c	0.605	0.015
BL6	0.555	1.024
BL6a	0.331	0.055
BXD01	-0.157	-0.476
BXD010	0.129	-0.533
BXD011	0.494	-0.571
BXD03	-0.557	0.499
BXD04	0.108	-0.157
BXD05	0.318	-0.138
BXD06	-0.342	-0.599
BXD07	-0.154	0.531
BXD08	0.281	-0.2
BXD09	-0.32	-0.33
CAST	0.085	0.08
CCcont	0.182	0.904
DS01	0.828	1.157
DS02	1.457	1.385
DS04	0.722	2.209
DS0c	1.087	1.697
GP01	0.257	-0.722
GP02	1.356	-1.285
GP0c	0.192	-0.317
NOD	-0.576	-0.096
NZO	0.588	-0.79
PWK	-0.014	0.742
H37Rv_KO_CtpC	-0.354	-0.312
H37Rv_KO_CtpD	-0.288	-0.667
H37Rv_KO_Rv1272	-0.043	0.608
H37Rv_KO_SugABC	0.374	1.89
H37Rv_KO_MbtN	0.031	-1.364
Trans05	0.114	0.295
macrophage_unactivated	0.3	0.022
IL1	0.246	-1.13
Rapamycin	0.531	-0.356
Tcell	-0.039	-0.762
GMCSF	0.19	-0.264
IFNab	-0.151	-0.732
IFNg	0.313	-0.04
IFNg_GMCSF1	-0.572	0.069
Rv1432_day32	1.66	0.176
Rv1565c_day32	-0.251	-1.445
secA2_input	-1.393	-0.175
delta_Rv3594	0.106	-0.165
delta_Rv3717	-0.769	-1.153
delta_Rv3811	-0.092	-0.29
delta_Rv0954	0.222	0.584
PonA1	-0.06	0.242
EccD1_KO	0.128	0.474
EspI_KO	0.054	0.254
PE35_KO	-0.146	-1.146
PPE68_KO	0.093	0.0
glycerol2	-0.206	1.042
lignocerate	0.418	1.455
oleate	-0.067	0.096
phosphatidylcholine	0.375	1.196
acetate	-0.052	1.802
glucAc	0.488	0.669
Rv0950ko	1.067	0.332
Rv1096ko	0.582	0.811
Rv3684ko	1.019	0.829
delta_otsA_trehalose	-1.145	-1.201