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 Rv1908c/katG:

update plot	correlation	link to info on gene
Rv2259/mscR	(cc=0.6783)	info on Rv2259/mscR
Rv3715c/recR	(cc=0.6779)	info on Rv3715c/recR
Rv1420/uvrC	(cc=0.6662)	info on Rv1420/uvrC
Rv1633/uvrB	(cc=0.663)	info on Rv1633/uvrB
Rv1173/fbiC	(cc=0.628)	info on Rv1173/fbiC
Rv1701/-	(cc=0.618)	info on Rv1701/-
Rv2198c/mmpS3	(cc=0.6134)	info on Rv2198c/mmpS3
Rv1638/uvrA	(cc=0.6103)	info on Rv1638/uvrA
Rv2373c/dnaJ2	(cc=0.5982)	info on Rv2373c/dnaJ2
Rv3624c/hpt	(cc=0.5969)	info on Rv3624c/hpt

Correlation of Rv1908c/katG with Rv1173/fbiC

Normalized LFCs for Rv1908c/katG:
(description and provenance of datasets)

	Rv1908c/katG	Rv1173/fbiC
Fe_supp_jason_reseq	2.303	0.8
low_pH_jason_reseq	-0.44	0.124
NO_jason_reseq	-0.69	-0.42
B6_jason_reseq	-0.292	0.16
MHCII_jason_reseq	-0.257	0.27
Isoniazid02	0.0	2.424
Rifampicin4	0.0	0.931
Ethambutol3	0.0	1.147
Meropenem3	0.0	1.23
Vancomycin16	0.0	0.546
Rv2680_day32	0.0	-1.189
H37Rv_KO_MarP	-1.722	-0.412
hypoxia_3wks	-0.977	-0.478
hypoxia_6wks	-2.714	-1.539
glycerol	0.0	1.128
cholesterol	0.0	0.583
AJ	0.0	0.513
Bibs02	0.0	0.0
Bibs02c	0.0	0.355
BL6	0.238	-0.456
BL6a	0.544	0.336
BXD01	0.248	0.151
BXD010	0.0	-0.168
BXD011	0.854	-0.167
BXD03	0.0	0.08
BXD04	0.34	-0.347
BXD05	0.661	-0.176
BXD06	0.469	0.155
BXD07	0.0	0.373
BXD08	0.365	-0.485
BXD09	0.69	0.163
CAST	0.0	-0.302
CCcont	3.165	1.832
DS01	0.0	1.783
DS02	0.0	1.134
DS04	0.953	1.834
DS0c	0.0	1.287
GP01	0.0	-0.548
GP02	0.0	-0.462
GP0c	0.0	-0.591
NOD	0.0	-0.295
NZO	0.0	-0.262
PWK	0.0	-0.398
H37Rv_KO_CtpC	0.446	0.785
H37Rv_KO_CtpD	0.703	1.374
H37Rv_KO_Rv1272	0.141	0.445
H37Rv_KO_SugABC	0.42	0.168
H37Rv_KO_MbtN	2.414	0.866
Trans05	0.359	0.631
macrophage_unactivated	0.0	0.783
IL1	0.0	0.258
Rapamycin	0.0	0.0
Tcell	0.0	0.554
GMCSF	0.0	1.035
IFNab	0.417	0.0
IFNg	0.0	-0.516
IFNg_GMCSF1	0.0	0.534
Rv1432_day32	-0.494	-0.164
Rv1565c_day32	0.0	0.986
secA2_input	0.67	-1.154
delta_Rv3594	0.907	0.422
delta_Rv3717	0.784	-1.688
delta_Rv3811	0.812	0.457
delta_Rv0954	0.842	1.388
PonA1	-0.419	0.919
EccD1_KO	-4.969	-1.273
EspI_KO	-4.743	-0.516
PE35_KO	1.374	1.508
PPE68_KO	0.275	0.595
glycerol2	-3.698	-1.645
lignocerate	-2.548	-3.039
oleate	-3.077	-2.915
phosphatidylcholine	-3.546	-3.808
acetate	0.253	0.203
glucAc	-0.375	-0.246
Rv0950ko	-1.212	-0.546
Rv1096ko	-1.493	-1.034
Rv3684ko	-0.298	-1.055
delta_otsA_trehalose	0.153	0.414