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 Rv2695/-

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

	Rv1586c/-	Rv2695/-
Fe_supp_jason_reseq	0.35	0.0
low_pH_jason_reseq	-1.119	-0.8
NO_jason_reseq	-0.147	0.711
B6_jason_reseq	0.048	-0.11
MHCII_jason_reseq	0.621	0.544
Isoniazid02	-0.32	0.664
Rifampicin4	0.753	0.799
Ethambutol3	-0.197	0.759
Meropenem3	0.696	0.167
Vancomycin16	-0.244	0.074
Rv2680_day32	-0.367	1.658
H37Rv_KO_MarP	-0.152	-0.137
hypoxia_3wks	-0.451	0.0
hypoxia_6wks	-0.405	0.85
glycerol	0.351	-0.098
cholesterol	0.074	0.328
AJ	0.136	1.126
Bibs02	0.784	1.22
Bibs02c	0.605	0.527
BL6	0.555	0.703
BL6a	0.331	0.743
BXD01	-0.157	1.038
BXD010	0.129	0.948
BXD011	0.494	0.722
BXD03	-0.557	0.514
BXD04	0.108	0.342
BXD05	0.318	1.327
BXD06	-0.342	0.224
BXD07	-0.154	0.771
BXD08	0.281	1.103
BXD09	-0.32	0.479
CAST	0.085	0.053
CCcont	0.182	0.178
DS01	0.828	1.935
DS02	1.457	1.531
DS04	0.722	2.09
DS0c	1.087	0.965
GP01	0.257	2.283
GP02	1.356	2.524
GP0c	0.192	2.06
NOD	-0.576	-0.146
NZO	0.588	0.704
PWK	-0.014	0.432
H37Rv_KO_CtpC	-0.354	1.098
H37Rv_KO_CtpD	-0.288	0.851
H37Rv_KO_Rv1272	-0.043	1.466
H37Rv_KO_SugABC	0.374	1.415
H37Rv_KO_MbtN	0.031	1.95
Trans05	0.114	1.609
macrophage_unactivated	0.3	0.366
IL1	0.246	1.038
Rapamycin	0.531	1.04
Tcell	-0.039	0.358
GMCSF	0.19	-0.071
IFNab	-0.151	-0.039
IFNg	0.313	-0.861
IFNg_GMCSF1	-0.572	0.167
Rv1432_day32	1.66	2.315
Rv1565c_day32	-0.251	-0.531
secA2_input	-1.393	-0.495
delta_Rv3594	0.106	-0.424
delta_Rv3717	-0.769	-0.293
delta_Rv3811	-0.092	-0.958
delta_Rv0954	0.222	-0.603
PonA1	-0.06	-1.173
EccD1_KO	0.128	0.681
EspI_KO	0.054	0.08
PE35_KO	-0.146	0.379
PPE68_KO	0.093	0.397
glycerol2	-0.206	-0.577
lignocerate	0.418	-0.828
oleate	-0.067	-0.478
phosphatidylcholine	0.375	-2.76
acetate	-0.052	-0.771
glucAc	0.488	-0.837
Rv0950ko	1.067	0.802
Rv1096ko	0.582	0.365
Rv3684ko	1.019	0.652
delta_otsA_trehalose	-1.145	-1.39