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 Rv3166c/-:

update plot	correlation	link to info on gene
Rv2452c/-	(cc=0.6893)	info on Rv2452c/-
Rv0501/galE2	(cc=0.6028)	info on Rv0501/galE2
Rv0371c/-	(cc=0.589)	info on Rv0371c/-
Rv2548/vapC19	(cc=0.5851)	info on Rv2548/vapC19
Rv2584c/apt	(cc=0.562)	info on Rv2584c/apt
Rv1831/-	(cc=0.5606)	info on Rv1831/-
Rv1505c/-	(cc=0.5566)	info on Rv1505c/-
Rv1583c/-	(cc=0.5531)	info on Rv1583c/-
Rv2500c/fadE19	(cc=0.5521)	info on Rv2500c/fadE19
Rv2818c/-	(cc=0.5391)	info on Rv2818c/-

Correlation of Rv3166c/- with Rv0501/galE2

Normalized LFCs for Rv3166c/-:
(description and provenance of datasets)

	Rv3166c/-	Rv0501/galE2
Fe_supp_jason_reseq	1.028	0.819
low_pH_jason_reseq	0.482	0.398
NO_jason_reseq	0.087	0.9
B6_jason_reseq	-1.11	-0.603
MHCII_jason_reseq	-0.193	0.81
Isoniazid02	0.412	-0.566
Rifampicin4	-0.073	0.171
Ethambutol3	0.501	-0.632
Meropenem3	0.214	0.232
Vancomycin16	0.21	-1.544
Rv2680_day32	0.781	0.396
H37Rv_KO_MarP	0.183	0.492
hypoxia_3wks	0.0	0.586
hypoxia_6wks	-0.336	0.334
glycerol	0.803	1.084
cholesterol	0.497	0.87
AJ	0.861	0.961
Bibs02	-0.621	-0.725
Bibs02c	1.303	0.706
BL6	1.769	0.671
BL6a	2.045	1.462
BXD01	1.207	1.68
BXD010	0.811	0.367
BXD011	1.128	0.832
BXD03	1.462	0.843
BXD04	1.549	0.896
BXD05	1.91	0.688
BXD06	1.378	1.106
BXD07	1.851	1.499
BXD08	1.11	0.999
BXD09	1.744	1.5
CAST	-0.284	-0.609
CCcont	1.322	1.284
DS01	0.219	0.934
DS02	0.277	0.088
DS04	0.28	0.749
DS0c	0.082	1.384
GP01	-0.079	1.371
GP02	1.205	1.485
GP0c	0.694	1.012
NOD	1.009	0.846
NZO	-0.525	-0.231
PWK	-1.138	-0.352
H37Rv_KO_CtpC	1.129	-0.214
H37Rv_KO_CtpD	2.225	1.254
H37Rv_KO_Rv1272	0.296	1.287
H37Rv_KO_SugABC	0.159	0.579
H37Rv_KO_MbtN	-0.22	1.465
Trans05	0.097	1.139
macrophage_unactivated	0.71	1.102
IL1	0.86	-0.896
Rapamycin	1.019	0.203
Tcell	0.248	0.661
GMCSF	0.158	0.174
IFNab	1.128	0.278
IFNg	0.115	0.107
IFNg_GMCSF1	1.439	0.248
Rv1432_day32	0.931	0.759
Rv1565c_day32	0.035	-0.618
secA2_input	-0.233	-0.391
delta_Rv3594	0.537	-0.349
delta_Rv3717	-0.866	0.323
delta_Rv3811	-0.235	-0.379
delta_Rv0954	-0.544	-1.056
PonA1	-0.922	-1.075
EccD1_KO	0.533	-0.585
EspI_KO	0.639	1.001
PE35_KO	0.359	-0.061
PPE68_KO	0.266	-0.24
glycerol2	-0.319	0.205
lignocerate	0.222	-0.18
oleate	-0.323	-0.398
phosphatidylcholine	0.088	-0.636
acetate	0.53	0.289
glucAc	0.233	-0.365
Rv0950ko	-1.101	-1.004
Rv1096ko	-1.143	-1.496
Rv3684ko	-0.789	-1.091
delta_otsA_trehalose	-0.826	-0.199