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 Rv1587c/-

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

	Rv1586c/-	Rv1587c/-
Fe_supp_jason_reseq	0.35	-0.292
low_pH_jason_reseq	-1.119	-0.253
NO_jason_reseq	-0.147	0.26
B6_jason_reseq	0.048	0.172
MHCII_jason_reseq	0.621	0.352
Isoniazid02	-0.32	0.201
Rifampicin4	0.753	0.0
Ethambutol3	-0.197	0.485
Meropenem3	0.696	1.945
Vancomycin16	-0.244	-0.069
Rv2680_day32	-0.367	-0.18
H37Rv_KO_MarP	-0.152	-0.135
hypoxia_3wks	-0.451	0.044
hypoxia_6wks	-0.405	-0.583
glycerol	0.351	-1.005
cholesterol	0.074	-0.17
AJ	0.136	0.607
Bibs02	0.784	0.264
Bibs02c	0.605	-0.106
BL6	0.555	0.71
BL6a	0.331	0.198
BXD01	-0.157	-0.162
BXD010	0.129	0.572
BXD011	0.494	0.759
BXD03	-0.557	-0.009
BXD04	0.108	0.415
BXD05	0.318	0.286
BXD06	-0.342	0.133
BXD07	-0.154	0.138
BXD08	0.281	0.36
BXD09	-0.32	-0.017
CAST	0.085	0.332
CCcont	0.182	-0.521
DS01	0.828	0.25
DS02	1.457	0.651
DS04	0.722	0.616
DS0c	1.087	0.786
GP01	0.257	0.51
GP02	1.356	0.794
GP0c	0.192	0.229
NOD	-0.576	-0.143
NZO	0.588	0.808
PWK	-0.014	0.71
H37Rv_KO_CtpC	-0.354	-0.459
H37Rv_KO_CtpD	-0.288	0.287
H37Rv_KO_Rv1272	-0.043	-0.803
H37Rv_KO_SugABC	0.374	-1.055
H37Rv_KO_MbtN	0.031	-0.444
Trans05	0.114	-0.075
macrophage_unactivated	0.3	-0.533
IL1	0.246	-0.347
Rapamycin	0.531	-0.485
Tcell	-0.039	-0.906
GMCSF	0.19	-0.446
IFNab	-0.151	-1.125
IFNg	0.313	0.195
IFNg_GMCSF1	-0.572	-0.305
Rv1432_day32	1.66	2.374
Rv1565c_day32	-0.251	0.022
secA2_input	-1.393	-0.596
delta_Rv3594	0.106	0.658
delta_Rv3717	-0.769	-0.115
delta_Rv3811	-0.092	0.573
delta_Rv0954	0.222	0.937
PonA1	-0.06	0.099
EccD1_KO	0.128	0.141
EspI_KO	0.054	-0.573
PE35_KO	-0.146	-0.265
PPE68_KO	0.093	-0.07
glycerol2	-0.206	-0.687
lignocerate	0.418	-0.505
oleate	-0.067	-0.43
phosphatidylcholine	0.375	-0.562
acetate	-0.052	-0.073
glucAc	0.488	-0.167
Rv0950ko	1.067	0.615
Rv1096ko	0.582	0.615
Rv3684ko	1.019	0.704
delta_otsA_trehalose	-1.145	-0.018