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 Rv2806/-:

update plot	correlation	link to info on gene
Rv2231c/cobC	(cc=0.5281)	info on Rv2231c/cobC
Rv1996/-	(cc=0.5175)	info on Rv1996/-
Rv2774c/-	(cc=0.4999)	info on Rv2774c/-
Rv3178/-	(cc=0.4896)	info on Rv3178/-
Rv0049/-	(cc=0.4747)	info on Rv0049/-
Rv3338/-	(cc=0.4736)	info on Rv3338/-
Rv3392c/cmaA1	(cc=0.4722)	info on Rv3392c/cmaA1
Rv2639c/-	(cc=0.4656)	info on Rv2639c/-
Rv2653c/-	(cc=0.4653)	info on Rv2653c/-
Rv1753c/PPE24	(cc=0.4632)	info on Rv1753c/PPE24

Correlation of Rv2806/- with Rv2639c/-

Normalized LFCs for Rv2806/-:
(description and provenance of datasets)

	Rv2806/-	Rv2639c/-
Fe_supp_jason_reseq	-0.54	0.068
low_pH_jason_reseq	-1.087	-0.085
NO_jason_reseq	-0.992	0.362
B6_jason_reseq	-0.321	0.114
MHCII_jason_reseq	0.315	0.077
Isoniazid02	-0.589	-2.072
Rifampicin4	-0.495	0.152
Ethambutol3	-0.754	-2.212
Meropenem3	-0.621	-2.692
Vancomycin16	-0.045	-1.276
Rv2680_day32	-0.554	0.489
H37Rv_KO_MarP	0.023	0.965
hypoxia_3wks	1.196	0.335
hypoxia_6wks	1.063	0.426
glycerol	0.513	-0.253
cholesterol	-1.016	-0.512
AJ	1.407	1.292
Bibs02	0.343	-0.623
Bibs02c	-0.808	-0.068
BL6	-0.483	-0.797
BL6a	-0.036	-0.65
BXD01	1.022	0.011
BXD010	0.486	0.291
BXD011	0.584	-0.14
BXD03	0.325	-0.102
BXD04	0.308	0.692
BXD05	0.544	0.194
BXD06	0.394	-0.031
BXD07	1.055	0.037
BXD08	0.866	0.041
BXD09	0.482	-0.126
CAST	0.093	-0.242
CCcont	-0.766	-1.042
DS01	0.135	0.303
DS02	0.947	-0.071
DS04	0.354	-0.156
DS0c	0.418	-0.283
GP01	0.576	0.061
GP02	0.207	1.528
GP0c	-0.269	0.714
NOD	-0.449	-0.425
NZO	1.428	0.319
PWK	1.144	0.558
H37Rv_KO_CtpC	0.84	1.378
H37Rv_KO_CtpD	-1.44	-0.976
H37Rv_KO_Rv1272	1.179	0.208
H37Rv_KO_SugABC	0.568	0.621
H37Rv_KO_MbtN	1.216	0.257
Trans05	1.05	0.565
macrophage_unactivated	0.237	-1.098
IL1	-0.208	-0.709
Rapamycin	0.307	-0.282
Tcell	0.701	-1.219
GMCSF	-0.586	0.071
IFNab	-0.435	-0.484
IFNg	-0.094	0.401
IFNg_GMCSF1	-0.163	-0.88
Rv1432_day32	0.733	0.81
Rv1565c_day32	-0.539	-1.278
secA2_input	-0.218	0.283
delta_Rv3594	2.226	0.054
delta_Rv3717	1.441	0.299
delta_Rv3811	2.28	0.442
delta_Rv0954	1.567	0.196
PonA1	0.925	0.807
EccD1_KO	0.0	1.667
EspI_KO	-0.026	0.291
PE35_KO	0.42	0.729
PPE68_KO	0.637	1.334
glycerol2	0.205	0.252
lignocerate	-0.393	-0.244
oleate	1.009	0.59
phosphatidylcholine	0.356	0.465
acetate	-0.735	-0.845
glucAc	-1.598	-1.314
Rv0950ko	0.516	0.084
Rv1096ko	-0.187	-0.549
Rv3684ko	0.265	-0.986
delta_otsA_trehalose	-0.492	-0.482