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 Rv2599/-:

update plot	correlation	link to info on gene
Rv3354/-	(cc=0.6035)	info on Rv3354/-
Rv3078/hab	(cc=0.5983)	info on Rv3078/hab
Rv1974/-	(cc=0.5963)	info on Rv1974/-
Rv3295/-	(cc=0.5816)	info on Rv3295/-
Rv3037c/-	(cc=0.5758)	info on Rv3037c/-
Rv1250/-	(cc=0.5756)	info on Rv1250/-
Rv2872/vapC43	(cc=0.5671)	info on Rv2872/vapC43
Rv1323/fadA4	(cc=0.5666)	info on Rv1323/fadA4
Rv2517c/-	(cc=0.5641)	info on Rv2517c/-
Rv3204/-	(cc=0.5603)	info on Rv3204/-

Correlation of Rv2599/- with Rv3354/-

Normalized LFCs for Rv2599/-:
(description and provenance of datasets)

	Rv2599/-	Rv3354/-
Fe_supp_jason_reseq	-0.624	-1.138
low_pH_jason_reseq	-0.591	-0.381
NO_jason_reseq	0.06	-0.793
B6_jason_reseq	0.422	0.985
MHCII_jason_reseq	0.753	1.019
Isoniazid02	0.084	1.043
Rifampicin4	0.073	0.125
Ethambutol3	0.151	0.398
Meropenem3	0.258	1.179
Vancomycin16	-0.117	0.162
Rv2680_day32	0.236	0.659
H37Rv_KO_MarP	0.044	0.422
hypoxia_3wks	-0.231	-0.347
hypoxia_6wks	0.013	-0.595
glycerol	-0.006	0.674
cholesterol	-0.125	0.892
AJ	-0.148	-0.171
Bibs02	-0.044	-0.029
Bibs02c	0.488	0.596
BL6	-0.456	-0.912
BL6a	-0.042	-0.067
BXD01	-0.697	-1.687
BXD010	-0.068	-1.434
BXD011	0.149	-2.812
BXD03	-0.468	-2.487
BXD04	-0.786	-1.729
BXD05	-0.15	-1.146
BXD06	-0.578	-1.932
BXD07	-0.276	-2.262
BXD08	-0.838	-1.667
BXD09	-0.512	-2.542
CAST	-0.359	0.097
CCcont	-0.439	-1.82
DS01	0.125	-0.077
DS02	-0.017	0.269
DS04	0.219	0.395
DS0c	0.289	-0.597
GP01	-0.736	-1.486
GP02	0.344	-0.295
GP0c	-1.293	-0.754
NOD	0.519	-0.169
NZO	0.101	0.127
PWK	-0.752	0.367
H37Rv_KO_CtpC	0.379	-0.788
H37Rv_KO_CtpD	-0.695	-1.146
H37Rv_KO_Rv1272	-0.767	-0.927
H37Rv_KO_SugABC	0.892	-0.855
H37Rv_KO_MbtN	-0.721	-1.624
Trans05	-0.132	-0.244
macrophage_unactivated	-1.158	-1.654
IL1	-1.24	-1.649
Rapamycin	-1.007	-1.034
Tcell	-0.762	-1.473
GMCSF	-0.222	-2.118
IFNab	-0.707	-2.056
IFNg	0.168	-0.949
IFNg_GMCSF1	-0.123	-0.641
Rv1432_day32	0.488	0.3
Rv1565c_day32	0.534	0.635
secA2_input	0.49	0.645
delta_Rv3594	0.39	-0.395
delta_Rv3717	-0.141	-0.21
delta_Rv3811	0.41	0.592
delta_Rv0954	0.376	0.58
PonA1	0.489	-0.802
EccD1_KO	0.964	1.217
EspI_KO	1.529	1.201
PE35_KO	1.52	0.204
PPE68_KO	0.989	1.254
glycerol2	0.217	1.595
lignocerate	0.488	1.672
oleate	-0.133	0.822
phosphatidylcholine	0.36	1.291
acetate	0.477	1.047
glucAc	0.722	1.449
Rv0950ko	0.648	0.365
Rv1096ko	0.507	0.268
Rv3684ko	-0.072	0.933
delta_otsA_trehalose	-0.837	0.808