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 Rv0133/-:

update plot	correlation	link to info on gene
Rv0036c/-	(cc=0.5195)	info on Rv0036c/-
Rv2642/-	(cc=0.5169)	info on Rv2642/-
Rv0421c/-	(cc=0.4956)	info on Rv0421c/-
Rv0377/-	(cc=0.4759)	info on Rv0377/-
Rv3704c/gshA	(cc=0.4758)	info on Rv3704c/gshA
Rv2917/-	(cc=0.4729)	info on Rv2917/-
Rv3744/nmtR	(cc=0.4681)	info on Rv3744/nmtR
Rv1859/modC	(cc=0.4663)	info on Rv1859/modC
Rv0841/-	(cc=0.4648)	info on Rv0841/-
Rv0481c/-	(cc=0.464)	info on Rv0481c/-

Correlation of Rv0133/- with Rv0036c/-

Normalized LFCs for Rv0133/-:
(description and provenance of datasets)

	Rv0133/-	Rv0036c/-
Fe_supp_jason_reseq	-0.493	-0.346
low_pH_jason_reseq	-1.347	-1.297
NO_jason_reseq	0.186	0.202
B6_jason_reseq	-0.893	0.25
MHCII_jason_reseq	-0.131	0.134
Isoniazid02	0.079	0.652
Rifampicin4	0.271	0.717
Ethambutol3	0.106	1.378
Meropenem3	0.049	0.537
Vancomycin16	0.019	0.873
Rv2680_day32	-2.344	-3.314
H37Rv_KO_MarP	0.025	0.148
hypoxia_3wks	-0.167	0.463
hypoxia_6wks	-0.495	-0.969
glycerol	0.309	1.205
cholesterol	0.255	0.106
AJ	0.269	0.304
Bibs02	-0.683	0.229
Bibs02c	-0.203	0.653
BL6	-0.925	-1.378
BL6a	-0.641	-0.296
BXD01	-0.334	-1.055
BXD010	-0.618	-1.216
BXD011	-0.919	0.465
BXD03	0.102	-1.212
BXD04	-1.277	-0.4
BXD05	-1.169	-0.13
BXD06	-1.062	-0.199
BXD07	-0.749	-0.133
BXD08	-1.405	-0.436
BXD09	-0.753	-0.657
CAST	-0.47	-0.901
CCcont	-2.318	-1.863
DS01	-0.293	0.375
DS02	-0.978	0.403
DS04	0.069	-0.18
DS0c	-0.729	-0.38
GP01	-0.395	1.587
GP02	0.048	0.505
GP0c	-0.192	0.469
NOD	-1.01	-0.633
NZO	0.361	-0.22
PWK	-0.065	0.47
H37Rv_KO_CtpC	-0.76	-0.298
H37Rv_KO_CtpD	0.702	-0.256
H37Rv_KO_Rv1272	-0.742	-0.716
H37Rv_KO_SugABC	0.621	0.088
H37Rv_KO_MbtN	-1.933	0.111
Trans05	-0.844	0.164
macrophage_unactivated	-0.963	-0.3
IL1	-1.183	-0.599
Rapamycin	-0.862	0.681
Tcell	-0.834	-1.111
GMCSF	-0.351	0.945
IFNab	-0.922	0.033
IFNg	-0.053	-0.834
IFNg_GMCSF1	1.405	0.493
Rv1432_day32	0.112	0.379
Rv1565c_day32	-0.126	0.479
secA2_input	0.437	0.459
delta_Rv3594	-0.13	0.33
delta_Rv3717	-0.045	0.886
delta_Rv3811	0.0	-0.159
delta_Rv0954	0.634	1.416
PonA1	0.997	0.263
EccD1_KO	-0.069	-0.082
EspI_KO	-0.242	-1.112
PE35_KO	-1.205	0.365
PPE68_KO	-1.389	0.49
glycerol2	-1.709	-0.376
lignocerate	-0.971	-1.436
oleate	-0.371	-0.451
phosphatidylcholine	-1.203	-0.784
acetate	0.012	-2.018
glucAc	-1.935	-2.881
Rv0950ko	0.229	0.075
Rv1096ko	0.823	-0.178
Rv3684ko	0.167	0.285
delta_otsA_trehalose	0.906	0.786