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 Rv2548/vapC19

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

	Rv3166c/-	Rv2548/vapC19
Fe_supp_jason_reseq	1.028	0.63
low_pH_jason_reseq	0.482	-0.087
NO_jason_reseq	0.087	-1.124
B6_jason_reseq	-1.11	-3.129
MHCII_jason_reseq	-0.193	-1.396
Isoniazid02	0.412	0.499
Rifampicin4	-0.073	-0.403
Ethambutol3	0.501	0.621
Meropenem3	0.214	0.034
Vancomycin16	0.21	0.334
Rv2680_day32	0.781	0.017
H37Rv_KO_MarP	0.183	-0.22
hypoxia_3wks	0.0	0.0
hypoxia_6wks	-0.336	0.0
glycerol	0.803	-0.961
cholesterol	0.497	-0.811
AJ	0.861	-0.677
Bibs02	-0.621	2.277
Bibs02c	1.303	0.643
BL6	1.769	0.661
BL6a	2.045	2.307
BXD01	1.207	1.936
BXD010	0.811	1.95
BXD011	1.128	2.089
BXD03	1.462	1.217
BXD04	1.549	1.65
BXD05	1.91	2.049
BXD06	1.378	1.943
BXD07	1.851	2.508
BXD08	1.11	2.196
BXD09	1.744	2.123
CAST	-0.284	-0.752
CCcont	1.322	1.764
DS01	0.219	0.388
DS02	0.277	0.54
DS04	0.28	2.02
DS0c	0.082	-1.411
GP01	-0.079	1.199
GP02	1.205	-0.466
GP0c	0.694	-0.425
NOD	1.009	-0.895
NZO	-0.525	-1.394
PWK	-1.138	-0.324
H37Rv_KO_CtpC	1.129	1.218
H37Rv_KO_CtpD	2.225	2.7
H37Rv_KO_Rv1272	0.296	0.406
H37Rv_KO_SugABC	0.159	0.73
H37Rv_KO_MbtN	-0.22	0.076
Trans05	0.097	1.696
macrophage_unactivated	0.71	0.953
IL1	0.86	0.575
Rapamycin	1.019	-0.654
Tcell	0.248	0.43
GMCSF	0.158	0.349
IFNab	1.128	-0.06
IFNg	0.115	-0.569
IFNg_GMCSF1	1.439	-0.223
Rv1432_day32	0.931	0.516
Rv1565c_day32	0.035	1.193
secA2_input	-0.233	-1.368
delta_Rv3594	0.537	0.376
delta_Rv3717	-0.866	0.92
delta_Rv3811	-0.235	0.526
delta_Rv0954	-0.544	-0.634
PonA1	-0.922	-1.604
EccD1_KO	0.533	-0.622
EspI_KO	0.639	-0.761
PE35_KO	0.359	-0.303
PPE68_KO	0.266	-0.218
glycerol2	-0.319	0.388
lignocerate	0.222	0.218
oleate	-0.323	0.302
phosphatidylcholine	0.088	0.515
acetate	0.53	0.148
glucAc	0.233	-0.355
Rv0950ko	-1.101	-1.447
Rv1096ko	-1.143	-1.176
Rv3684ko	-0.789	-1.402
delta_otsA_trehalose	-0.826	0.134