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 Rv2567/-:

update plot	correlation	link to info on gene
Rv2569c/-	(cc=0.8688)	info on Rv2569c/-
Rv0928/pstS3	(cc=0.6533)	info on Rv0928/pstS3
Rv0930/pstA1	(cc=0.6413)	info on Rv0930/pstA1
Rv0929/pstC2	(cc=0.6336)	info on Rv0929/pstC2
Rv2134c/-	(cc=0.6302)	info on Rv2134c/-
Rv0818/-	(cc=0.6158)	info on Rv0818/-
Rv0019c/fhaB	(cc=0.6117)	info on Rv0019c/fhaB
Rv0820/phoT	(cc=0.5945)	info on Rv0820/phoT
Rv2398c/cysW	(cc=0.5913)	info on Rv2398c/cysW
Rv3864/espE	(cc=0.5862)	info on Rv3864/espE

Correlation of Rv2567/- with Rv0019c/fhaB

Normalized LFCs for Rv2567/-:
(description and provenance of datasets)

	Rv2567/-	Rv0019c/fhaB
Fe_supp_jason_reseq	-0.955	0.89
low_pH_jason_reseq	3.403	0.102
NO_jason_reseq	-0.559	-1.376
B6_jason_reseq	0.085	-0.913
MHCII_jason_reseq	-1.254	-0.603
Isoniazid02	2.357	0.873
Rifampicin4	0.785	2.074
Ethambutol3	-0.066	-2.244
Meropenem3	0.701	-0.467
Vancomycin16	0.589	3.186
Rv2680_day32	1.485	1.374
H37Rv_KO_MarP	-1.226	-3.385
hypoxia_3wks	0.885	2.105
hypoxia_6wks	1.539	6.0
glycerol	1.327	4.817
cholesterol	-0.276	1.407
AJ	0.459	-0.983
Bibs02	0.294	-0.427
Bibs02c	0.174	0.0
BL6	0.933	1.745
BL6a	0.781	1.217
BXD01	1.622	2.749
BXD010	0.956	2.727
BXD011	1.818	2.443
BXD03	1.341	0.778
BXD04	2.213	2.344
BXD05	1.114	2.337
BXD06	2.234	2.088
BXD07	0.809	2.006
BXD08	1.448	1.646
BXD09	0.89	2.383
CAST	0.455	-0.976
CCcont	1.82	2.189
DS01	0.291	0.0
DS02	0.792	0.0
DS04	1.134	2.087
DS0c	0.506	-0.506
GP01	0.855	2.362
GP02	0.797	0.975
GP0c	1.102	3.464
NOD	0.277	-0.952
NZO	0.533	-0.845
PWK	1.242	-0.831
H37Rv_KO_CtpC	0.0	1.533
H37Rv_KO_CtpD	0.608	0.313
H37Rv_KO_Rv1272	0.469	0.693
H37Rv_KO_SugABC	0.231	2.794
H37Rv_KO_MbtN	2.453	4.57
Trans05	1.132	2.521
macrophage_unactivated	0.0	-0.685
IL1	0.0	0.181
Rapamycin	-0.285	0.046
Tcell	0.42	1.854
GMCSF	0.0	-0.62
IFNab	0.39	1.877
IFNg	-0.951	-1.096
IFNg_GMCSF1	-1.7	-0.572
Rv1432_day32	0.888	1.385
Rv1565c_day32	-1.2	0.766
secA2_input	-1.42	-3.284
delta_Rv3594	-0.073	1.53
delta_Rv3717	0.863	3.667
delta_Rv3811	-0.354	2.492
delta_Rv0954	-1.507	-0.775
PonA1	-0.34	-2.47
EccD1_KO	-0.48	-0.73
EspI_KO	-0.596	-0.967
PE35_KO	-0.516	-0.89
PPE68_KO	-0.275	-1.254
glycerol2	-1.611	-2.176
lignocerate	-0.267	-1.476
oleate	-0.56	-2.836
phosphatidylcholine	-0.966	-2.625
acetate	0.961	-0.055
glucAc	0.693	0.0
Rv0950ko	0.166	-3.121
Rv1096ko	0.166	0.051
Rv3684ko	-0.488	0.429
delta_otsA_trehalose	1.209	1.725