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 Rv3392c/cmaA1

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

	Rv2806/-	Rv3392c/cmaA1
Fe_supp_jason_reseq	-0.54	0.373
low_pH_jason_reseq	-1.087	0.783
NO_jason_reseq	-0.992	-1.748
B6_jason_reseq	-0.321	0.085
MHCII_jason_reseq	0.315	1.089
Isoniazid02	-0.589	0.054
Rifampicin4	-0.495	-0.772
Ethambutol3	-0.754	-0.14
Meropenem3	-0.621	0.086
Vancomycin16	-0.045	0.329
Rv2680_day32	-0.554	-0.365
H37Rv_KO_MarP	0.023	0.689
hypoxia_3wks	1.196	0.319
hypoxia_6wks	1.063	1.244
glycerol	0.513	0.844
cholesterol	-1.016	0.07
AJ	1.407	0.726
Bibs02	0.343	-1.179
Bibs02c	-0.808	0.55
BL6	-0.483	-0.731
BL6a	-0.036	0.936
BXD01	1.022	0.309
BXD010	0.486	-0.206
BXD011	0.584	0.742
BXD03	0.325	0.227
BXD04	0.308	0.208
BXD05	0.544	1.133
BXD06	0.394	0.482
BXD07	1.055	0.725
BXD08	0.866	0.656
BXD09	0.482	0.387
CAST	0.093	-0.462
CCcont	-0.766	-0.633
DS01	0.135	1.237
DS02	0.947	1.267
DS04	0.354	-0.167
DS0c	0.418	0.484
GP01	0.576	-1.899
GP02	0.207	-0.955
GP0c	-0.269	-1.78
NOD	-0.449	0.532
NZO	1.428	-0.481
PWK	1.144	1.124
H37Rv_KO_CtpC	0.84	0.625
H37Rv_KO_CtpD	-1.44	0.853
H37Rv_KO_Rv1272	1.179	-0.745
H37Rv_KO_SugABC	0.568	0.984
H37Rv_KO_MbtN	1.216	1.266
Trans05	1.05	0.456
macrophage_unactivated	0.237	-0.051
IL1	-0.208	0.181
Rapamycin	0.307	0.0
Tcell	0.701	-0.264
GMCSF	-0.586	0.784
IFNab	-0.435	0.78
IFNg	-0.094	-0.444
IFNg_GMCSF1	-0.163	-0.578
Rv1432_day32	0.733	0.394
Rv1565c_day32	-0.539	-0.283
secA2_input	-0.218	0.85
delta_Rv3594	2.226	2.022
delta_Rv3717	1.441	2.085
delta_Rv3811	2.28	2.411
delta_Rv0954	1.567	2.335
PonA1	0.925	1.021
EccD1_KO	0.0	0.47
EspI_KO	-0.026	1.075
PE35_KO	0.42	0.61
PPE68_KO	0.637	1.206
glycerol2	0.205	-0.474
lignocerate	-0.393	-0.363
oleate	1.009	0.0
phosphatidylcholine	0.356	-0.21
acetate	-0.735	-0.027
glucAc	-1.598	-1.118
Rv0950ko	0.516	0.763
Rv1096ko	-0.187	0.712
Rv3684ko	0.265	1.094
delta_otsA_trehalose	-0.492	-0.239