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 Rv1365c/rsfA:

update plot	correlation	link to info on gene
Rv0885/-	(cc=0.5363)	info on Rv0885/-
Rv3525c/-	(cc=0.4917)	info on Rv3525c/-
Rv1507A/-	(cc=0.4834)	info on Rv1507A/-
Rv3116/moeB2	(cc=0.4777)	info on Rv3116/moeB2
Rv2061c/-	(cc=0.4642)	info on Rv2061c/-
Rv2922c/smc	(cc=0.4617)	info on Rv2922c/smc
Rv3361c/-	(cc=0.4594)	info on Rv3361c/-
Rv2196/qcrB	(cc=0.449)	info on Rv2196/qcrB
Rv1261c/-	(cc=0.4488)	info on Rv1261c/-
Rv2290/lppO	(cc=0.4464)	info on Rv2290/lppO

Correlation of Rv1365c/rsfA with Rv1507A/-

Normalized LFCs for Rv1365c/rsfA:
(description and provenance of datasets)

	Rv1365c/rsfA	Rv1507A/-
Fe_supp_jason_reseq	0.415	1.042
low_pH_jason_reseq	-0.022	0.049
NO_jason_reseq	-1.57	-1.352
B6_jason_reseq	0.269	-0.032
MHCII_jason_reseq	-0.315	0.553
Isoniazid02	-0.968	-1.32
Rifampicin4	0.623	0.374
Ethambutol3	-0.809	-0.824
Meropenem3	-0.996	-0.029
Vancomycin16	-0.422	-0.297
Rv2680_day32	0.526	2.098
H37Rv_KO_MarP	0.474	-0.755
hypoxia_3wks	0.562	1.567
hypoxia_6wks	0.173	1.265
glycerol	0.492	0.31
cholesterol	0.559	0.835
AJ	-0.583	0.356
Bibs02	0.546	0.281
Bibs02c	2.099	0.6
BL6	1.781	1.098
BL6a	1.759	1.142
BXD01	0.977	1.204
BXD010	1.214	1.335
BXD011	1.783	0.888
BXD03	0.909	0.961
BXD04	1.551	1.114
BXD05	0.982	1.213
BXD06	1.132	1.887
BXD07	1.649	1.28
BXD08	1.453	0.702
BXD09	1.469	1.465
CAST	0.522	0.756
CCcont	0.434	1.041
DS01	0.944	-0.065
DS02	1.705	0.531
DS04	2.689	0.675
DS0c	0.211	0.622
GP01	-1.344	0.053
GP02	0.189	2.227
GP0c	-1.286	1.172
NOD	-0.291	-0.718
NZO	-0.449	0.733
PWK	-0.651	0.156
H37Rv_KO_CtpC	0.672	2.441
H37Rv_KO_CtpD	-0.351	1.887
H37Rv_KO_Rv1272	-0.183	0.375
H37Rv_KO_SugABC	-1.06	0.744
H37Rv_KO_MbtN	0.164	1.145
Trans05	0.138	-0.193
macrophage_unactivated	1.367	1.846
IL1	0.786	0.469
Rapamycin	0.859	0.485
Tcell	0.459	1.026
GMCSF	0.987	1.413
IFNab	1.061	0.163
IFNg	0.588	0.099
IFNg_GMCSF1	1.832	1.125
Rv1432_day32	0.591	0.823
Rv1565c_day32	-0.286	0.614
secA2_input	0.221	-0.665
delta_Rv3594	0.422	0.713
delta_Rv3717	0.581	0.457
delta_Rv3811	0.714	0.97
delta_Rv0954	0.778	0.087
PonA1	0.779	0.675
EccD1_KO	0.842	0.641
EspI_KO	-0.297	0.858
PE35_KO	0.254	-0.732
PPE68_KO	0.966	-0.883
glycerol2	-1.079	-0.206
lignocerate	-1.143	-0.309
oleate	-0.034	-0.136
phosphatidylcholine	-0.57	-0.134
acetate	-1.44	-0.58
glucAc	-1.679	-0.381
Rv0950ko	-2.035	-0.25
Rv1096ko	-0.44	-1.502
Rv3684ko	-0.203	-0.871
delta_otsA_trehalose	0.0	0.497