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 Rv1894c/-:

update plot	correlation	link to info on gene
Rv1834/lipZ	(cc=0.6359)	info on Rv1834/lipZ
Rv3295/-	(cc=0.6062)	info on Rv3295/-
Rv1734c/-	(cc=0.5995)	info on Rv1734c/-
Rv0540/-	(cc=0.5729)	info on Rv0540/-
Rv3059/cyp136	(cc=0.5715)	info on Rv3059/cyp136
Rv2633c/-	(cc=0.5691)	info on Rv2633c/-
Rv1467c/fadE15	(cc=0.5609)	info on Rv1467c/fadE15
Rv2030c/-	(cc=0.5563)	info on Rv2030c/-
Rv1041c/-	(cc=0.5561)	info on Rv1041c/-
Rv2642/-	(cc=0.5404)	info on Rv2642/-

Correlation of Rv1894c/- with Rv1734c/-

Normalized LFCs for Rv1894c/-:
(description and provenance of datasets)

	Rv1894c/-	Rv1734c/-
Fe_supp_jason_reseq	-0.472	-0.758
low_pH_jason_reseq	-0.959	-1.522
NO_jason_reseq	0.588	0.189
B6_jason_reseq	0.018	0.334
MHCII_jason_reseq	0.616	0.931
Isoniazid02	-0.904	0.07
Rifampicin4	-0.125	-0.972
Ethambutol3	-0.181	-0.362
Meropenem3	1.114	-0.186
Vancomycin16	-0.695	-0.791
Rv2680_day32	-0.345	0.413
H37Rv_KO_MarP	0.058	-0.143
hypoxia_3wks	-0.283	0.052
hypoxia_6wks	0.079	0.629
glycerol	0.064	-1.717
cholesterol	0.043	-0.385
AJ	-0.061	-0.637
Bibs02	0.083	0.18
Bibs02c	-0.059	-0.115
BL6	-0.702	-5.025
BL6a	-0.41	-1.475
BXD01	-0.256	-1.484
BXD010	-0.792	-1.162
BXD011	0.4	-1.613
BXD03	-1.064	-2.441
BXD04	-1.142	-3.083
BXD05	-0.608	-3.861
BXD06	-0.848	-2.192
BXD07	-0.978	-2.899
BXD08	-0.337	-3.815
BXD09	-0.823	-2.746
CAST	0.656	-0.148
CCcont	-1.281	-3.255
DS01	0.175	0.659
DS02	-0.129	0.408
DS04	-0.022	0.481
DS0c	-0.233	0.424
GP01	-0.748	-0.855
GP02	0.116	-1.086
GP0c	-0.767	-2.222
NOD	1.357	-0.272
NZO	0.244	-0.8
PWK	0.392	0.074
H37Rv_KO_CtpC	-0.069	-1.159
H37Rv_KO_CtpD	-0.838	-4.643
H37Rv_KO_Rv1272	0.064	-0.903
H37Rv_KO_SugABC	0.722	0.39
H37Rv_KO_MbtN	0.827	-0.286
Trans05	0.568	-0.229
macrophage_unactivated	-0.884	-4.564
IL1	-0.578	-6.0
Rapamycin	-0.957	-5.291
Tcell	-0.541	-2.727
GMCSF	-0.325	-4.668
IFNab	-0.895	-4.831
IFNg	-1.269	-6.0
IFNg_GMCSF1	0.06	-2.485
Rv1432_day32	0.13	0.421
Rv1565c_day32	0.289	-0.199
secA2_input	-0.009	-5.268
delta_Rv3594	0.217	2.268
delta_Rv3717	0.019	1.881
delta_Rv3811	0.311	2.17
delta_Rv0954	-0.19	1.354
PonA1	0.473	2.964
EccD1_KO	0.191	-0.664
EspI_KO	0.202	-2.98
PE35_KO	0.289	-1.19
PPE68_KO	0.042	-1.699
glycerol2	0.769	-0.336
lignocerate	0.418	-0.566
oleate	1.127	0.34
phosphatidylcholine	0.973	-0.227
acetate	-0.495	-0.01
glucAc	-0.634	-1.467
Rv0950ko	0.959	0.519
Rv1096ko	0.576	0.642
Rv3684ko	0.75	-0.115
delta_otsA_trehalose	0.739	0.443