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 Rv3836/-:

update plot	correlation	link to info on gene
Rv0742/PE_PGRS8	(cc=0.5072)	info on Rv0742/PE_PGRS8
Rv2161c/-	(cc=0.4692)	info on Rv2161c/-
Rv3425/PPE57	(cc=0.4678)	info on Rv3425/PPE57
Rv3176c/mesT	(cc=0.4678)	info on Rv3176c/mesT
Rv3312A/-	(cc=0.4501)	info on Rv3312A/-
Rv0235c/-	(cc=0.4446)	info on Rv0235c/-
Rv1489/-	(cc=0.4367)	info on Rv1489/-
Rv1879/-	(cc=0.4315)	info on Rv1879/-
Rv2918c/glnD	(cc=0.4206)	info on Rv2918c/glnD
Rv0215c/fadE3	(cc=0.4177)	info on Rv0215c/fadE3

Correlation of Rv3836/- with Rv0215c/fadE3

Normalized LFCs for Rv3836/-:
(description and provenance of datasets)

	Rv3836/-	Rv0215c/fadE3
Fe_supp_jason_reseq	-1.32	-0.45
low_pH_jason_reseq	-0.793	-0.979
NO_jason_reseq	0.685	0.499
B6_jason_reseq	-0.122	0.649
MHCII_jason_reseq	-0.063	-0.143
Isoniazid02	0.287	-0.349
Rifampicin4	0.122	0.154
Ethambutol3	0.295	-0.108
Meropenem3	0.401	-0.195
Vancomycin16	0.175	0.077
Rv2680_day32	-0.335	-0.019
H37Rv_KO_MarP	1.054	0.367
hypoxia_3wks	0.279	-0.032
hypoxia_6wks	-0.612	-0.361
glycerol	-0.026	0.129
cholesterol	0.115	-0.039
AJ	0.116	0.508
Bibs02	0.844	0.62
Bibs02c	0.276	0.171
BL6	0.273	-0.042
BL6a	0.522	0.634
BXD01	0.437	0.799
BXD010	0.161	0.066
BXD011	0.427	0.265
BXD03	0.49	0.095
BXD04	-0.195	0.842
BXD05	0.772	0.343
BXD06	0.69	0.375
BXD07	-0.072	0.835
BXD08	0.337	0.977
BXD09	0.398	0.344
CAST	0.584	0.868
CCcont	0.689	0.228
DS01	-0.062	0.602
DS02	0.041	0.555
DS04	-0.923	-0.316
DS0c	-0.544	0.404
GP01	-0.085	0.957
GP02	1.926	2.14
GP0c	0.746	0.971
NOD	-0.163	1.217
NZO	1.458	-0.341
PWK	0.202	0.58
H37Rv_KO_CtpC	0.46	-0.328
H37Rv_KO_CtpD	0.048	1.018
H37Rv_KO_Rv1272	0.561	0.845
H37Rv_KO_SugABC	1.408	-0.154
H37Rv_KO_MbtN	0.088	-0.041
Trans05	-0.416	-0.116
macrophage_unactivated	0.0	0.224
IL1	0.973	-0.136
Rapamycin	0.258	0.083
Tcell	0.199	-0.182
GMCSF	0.393	-0.121
IFNab	-0.45	-0.314
IFNg	-0.468	0.096
IFNg_GMCSF1	-0.305	0.49
Rv1432_day32	0.078	0.372
Rv1565c_day32	-2.889	-0.607
secA2_input	0.723	0.873
delta_Rv3594	-0.531	-0.517
delta_Rv3717	0.167	0.068
delta_Rv3811	0.238	-0.338
delta_Rv0954	0.0	-0.279
PonA1	0.422	0.574
EccD1_KO	-1.273	-0.312
EspI_KO	-0.964	-0.607
PE35_KO	-0.662	-0.528
PPE68_KO	-0.889	-0.278
glycerol2	1.037	-0.08
lignocerate	0.975	-0.216
oleate	0.683	0.214
phosphatidylcholine	0.675	-0.204
acetate	0.366	-0.883
glucAc	0.118	-0.724
Rv0950ko	-0.555	-0.467
Rv1096ko	-0.579	0.498
Rv3684ko	-1.503	0.0
delta_otsA_trehalose	-0.871	-1.557