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 Rv0030/-:

update plot	correlation	link to info on gene
Rv3524/-	(cc=0.5007)	info on Rv3524/-
Rv0070c/glyA2	(cc=0.4805)	info on Rv0070c/glyA2
Rv3430c/-	(cc=0.468)	info on Rv3430c/-
Rv1525/wbbL2	(cc=0.4632)	info on Rv1525/wbbL2
Rv0301/vapC2	(cc=0.4602)	info on Rv0301/vapC2
Rv3885c/eccE2	(cc=0.4484)	info on Rv3885c/eccE2
Rv1153c/omt	(cc=0.445)	info on Rv1153c/omt
Rv3454/-	(cc=0.4405)	info on Rv3454/-
Rv2195/qcrA	(cc=0.437)	info on Rv2195/qcrA
Rv3138/pflA	(cc=0.4342)	info on Rv3138/pflA

Correlation of Rv0030/- with Rv3524/-

Normalized LFCs for Rv0030/-:
(description and provenance of datasets)

	Rv0030/-	Rv3524/-
Fe_supp_jason_reseq	0.0	0.391
low_pH_jason_reseq	-0.263	-0.271
NO_jason_reseq	0.801	0.181
B6_jason_reseq	-1.539	0.534
MHCII_jason_reseq	1.232	0.474
Isoniazid02	-0.821	-0.239
Rifampicin4	-0.956	-0.444
Ethambutol3	-1.825	-1.001
Meropenem3	-1.312	-0.698
Vancomycin16	-1.263	-0.345
Rv2680_day32	0.249	0.121
H37Rv_KO_MarP	0.0	-0.042
hypoxia_3wks	-1.563	0.02
hypoxia_6wks	0.72	0.136
glycerol	-1.232	-0.645
cholesterol	-1.447	-0.696
AJ	-0.698	-0.131
Bibs02	0.894	0.118
Bibs02c	0.276	0.668
BL6	-0.555	0.761
BL6a	1.066	0.465
BXD01	-0.054	0.542
BXD010	0.593	0.707
BXD011	1.009	0.492
BXD03	1.4	0.38
BXD04	0.666	0.599
BXD05	1.278	0.549
BXD06	0.492	0.527
BXD07	1.071	0.715
BXD08	0.778	0.706
BXD09	0.65	0.527
CAST	-1.668	0.157
CCcont	-0.333	0.577
DS01	1.639	0.127
DS02	-1.033	0.158
DS04	-0.339	0.461
DS0c	1.243	0.288
GP01	-0.062	0.428
GP02	-1.434	-0.359
GP0c	-1.369	-0.251
NOD	-0.997	0.036
NZO	-0.767	-0.016
PWK	0.115	0.142
H37Rv_KO_CtpC	0.353	0.075
H37Rv_KO_CtpD	0.992	1.135
H37Rv_KO_Rv1272	0.109	1.129
H37Rv_KO_SugABC	2.107	0.097
H37Rv_KO_MbtN	0.04	-0.181
Trans05	-1.055	0.248
macrophage_unactivated	1.891	0.041
IL1	-0.187	-0.092
Rapamycin	0.0	0.068
Tcell	0.743	-0.013
GMCSF	-0.586	0.148
IFNab	0.638	0.067
IFNg	-0.593	-0.035
IFNg_GMCSF1	1.882	-0.013
Rv1432_day32	-0.042	-0.317
Rv1565c_day32	-1.921	0.0
secA2_input	-0.753	-0.814
delta_Rv3594	-3.942	-0.493
delta_Rv3717	-1.844	-0.301
delta_Rv3811	-3.034	-0.193
delta_Rv0954	-1.61	0.058
PonA1	-2.592	-0.364
EccD1_KO	-1.674	-1.121
EspI_KO	-0.796	-0.525
PE35_KO	0.432	-1.012
PPE68_KO	0.061	-0.538
glycerol2	-0.406	0.056
lignocerate	0.583	0.346
oleate	-2.247	0.021
phosphatidylcholine	0.119	0.272
acetate	0.635	-0.166
glucAc	0.866	0.572
Rv0950ko	0.57	0.567
Rv1096ko	1.583	0.018
Rv3684ko	0.969	0.891
delta_otsA_trehalose	3.92	0.604