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 Rv0484c/-:

update plot	correlation	link to info on gene
Rv0071/-	(cc=0.5045)	info on Rv0071/-
Rv0139/-	(cc=0.4782)	info on Rv0139/-
Rv3788/-	(cc=0.4679)	info on Rv3788/-
Rv2902c/rnhB	(cc=0.443)	info on Rv2902c/rnhB
Rv3729/-	(cc=0.4328)	info on Rv3729/-
Rv3450c/eccB4	(cc=0.4292)	info on Rv3450c/eccB4
Rv2651c/-	(cc=0.4255)	info on Rv2651c/-
Rv0536/galE3	(cc=0.4201)	info on Rv0536/galE3
Rv2725c/hflX	(cc=0.4146)	info on Rv2725c/hflX
Rv0918/-	(cc=0.4132)	info on Rv0918/-

Correlation of Rv0484c/- with Rv3788/-

Normalized LFCs for Rv0484c/-:
(description and provenance of datasets)

	Rv0484c/-	Rv3788/-
Fe_supp_jason_reseq	0.502	-0.401
low_pH_jason_reseq	-0.336	-0.823
NO_jason_reseq	-0.016	-0.685
B6_jason_reseq	-1.062	-1.016
MHCII_jason_reseq	0.183	0.244
Isoniazid02	-0.128	0.227
Rifampicin4	-0.547	-0.439
Ethambutol3	1.402	0.056
Meropenem3	1.519	-0.158
Vancomycin16	-0.621	-1.451
Rv2680_day32	1.364	-0.326
H37Rv_KO_MarP	-0.26	0.111
hypoxia_3wks	0.032	-0.259
hypoxia_6wks	0.167	-0.263
glycerol	1.142	0.81
cholesterol	0.334	0.463
AJ	0.634	0.898
Bibs02	0.441	0.069
Bibs02c	0.437	0.17
BL6	0.011	0.246
BL6a	-0.227	-0.839
BXD01	-0.203	-0.732
BXD010	-0.29	-0.592
BXD011	-1.05	-0.781
BXD03	-0.801	-0.992
BXD04	-0.558	-0.7
BXD05	-0.665	-0.088
BXD06	-0.42	-0.275
BXD07	-0.625	-0.627
BXD08	-1.069	-0.877
BXD09	-0.494	-0.579
CAST	-0.669	0.35
CCcont	-0.861	-0.215
DS01	-0.132	-0.051
DS02	-0.373	0.573
DS04	0.59	-0.625
DS0c	0.515	-0.02
GP01	-1.6	-0.665
GP02	0.192	-1.084
GP0c	-0.533	-0.608
NOD	0.185	1.378
NZO	-0.009	0.676
PWK	1.444	0.318
H37Rv_KO_CtpC	-0.122	0.737
H37Rv_KO_CtpD	0.554	0.672
H37Rv_KO_Rv1272	-0.847	-1.091
H37Rv_KO_SugABC	-1.378	-2.448
H37Rv_KO_MbtN	-0.87	-0.968
Trans05	-0.371	-0.334
macrophage_unactivated	0.085	-0.685
IL1	-0.166	-0.314
Rapamycin	0.11	-0.126
Tcell	0.0	-0.925
GMCSF	0.663	-0.415
IFNab	-0.139	-0.381
IFNg	0.417	0.0
IFNg_GMCSF1	0.383	-0.952
Rv1432_day32	0.21	0.738
Rv1565c_day32	0.486	-0.472
secA2_input	1.321	1.594
delta_Rv3594	0.115	-0.462
delta_Rv3717	-0.213	-0.344
delta_Rv3811	0.46	-0.143
delta_Rv0954	0.165	-0.836
PonA1	-0.163	0.507
EccD1_KO	0.039	-0.888
EspI_KO	-0.491	-1.124
PE35_KO	-0.05	-0.613
PPE68_KO	-0.72	-1.357
glycerol2	-0.136	-0.2
lignocerate	0.429	0.186
oleate	-0.068	0.02
phosphatidylcholine	0.143	0.253
acetate	0.188	-0.575
glucAc	-0.037	-0.549
Rv0950ko	-0.926	0.516
Rv1096ko	-0.142	-0.241
Rv3684ko	0.57	-0.452
delta_otsA_trehalose	-0.313	0.734