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 Rv0546c/-:

update plot	correlation	link to info on gene
Rv1313c/-	(cc=0.5595)	info on Rv1313c/-
Rv3798/-	(cc=0.5069)	info on Rv3798/-
Rv2270/lppN	(cc=0.4793)	info on Rv2270/lppN
Rv0984/moaB2	(cc=0.4719)	info on Rv0984/moaB2
Rv0544c/-	(cc=0.4714)	info on Rv0544c/-
Rv0540/-	(cc=0.4686)	info on Rv0540/-
Rv0428c/-	(cc=0.4496)	info on Rv0428c/-
Rv2232/ptkA	(cc=0.4481)	info on Rv2232/ptkA
Rv1773c/-	(cc=0.4476)	info on Rv1773c/-
Rv1042c/-	(cc=0.4453)	info on Rv1042c/-

Correlation of Rv0546c/- with Rv1042c/-

Normalized LFCs for Rv0546c/-:
(description and provenance of datasets)

	Rv0546c/-	Rv1042c/-
Fe_supp_jason_reseq	-0.085	-1.46
low_pH_jason_reseq	-1.691	-1.064
NO_jason_reseq	-0.318	-0.78
B6_jason_reseq	0.345	0.796
MHCII_jason_reseq	0.193	0.763
Isoniazid02	0.016	0.451
Rifampicin4	1.614	1.914
Ethambutol3	0.377	0.814
Meropenem3	0.714	0.994
Vancomycin16	1.244	1.292
Rv2680_day32	-0.721	-0.571
H37Rv_KO_MarP	-0.158	-0.032
hypoxia_3wks	1.998	1.049
hypoxia_6wks	1.422	1.33
glycerol	1.352	0.168
cholesterol	1.157	0.131
AJ	-0.012	0.734
Bibs02	0.307	0.372
Bibs02c	1.084	1.84
BL6	-0.634	-0.98
BL6a	0.673	1.413
BXD01	-0.339	-0.009
BXD010	-0.396	0.413
BXD011	1.404	-0.323
BXD03	-0.211	0.618
BXD04	0.295	-0.744
BXD05	0.371	0.39
BXD06	-0.073	0.075
BXD07	-0.576	0.171
BXD08	-0.374	-0.8
BXD09	-0.677	0.32
CAST	0.279	0.692
CCcont	-0.251	-1.018
DS01	-0.31	1.09
DS02	0.698	0.922
DS04	-0.614	0.188
DS0c	-0.011	0.592
GP01	0.293	-2.405
GP02	0.027	-0.64
GP0c	-0.178	-0.317
NOD	0.693	1.866
NZO	-0.646	0.058
PWK	0.719	0.915
H37Rv_KO_CtpC	-1.051	3.218
H37Rv_KO_CtpD	0.207	1.339
H37Rv_KO_Rv1272	-0.844	0.01
H37Rv_KO_SugABC	-0.412	-1.494
H37Rv_KO_MbtN	1.01	0.877
Trans05	-0.709	0.698
macrophage_unactivated	-1.376	-1.932
IL1	-1.688	-0.033
Rapamycin	-1.252	0.034
Tcell	-0.736	-0.551
GMCSF	0.026	-0.383
IFNab	0.644	-0.692
IFNg	-0.77	-1.187
IFNg_GMCSF1	-2.093	-0.962
Rv1432_day32	1.572	0.868
Rv1565c_day32	-1.366	0.485
secA2_input	-0.308	1.481
delta_Rv3594	1.574	0.239
delta_Rv3717	1.432	1.402
delta_Rv3811	1.459	0.824
delta_Rv0954	0.381	0.899
PonA1	0.304	-0.431
EccD1_KO	1.296	1.095
EspI_KO	1.417	1.315
PE35_KO	2.1	1.423
PPE68_KO	2.019	1.689
glycerol2	0.408	-0.495
lignocerate	0.023	-0.631
oleate	-1.141	-0.038
phosphatidylcholine	-0.563	-0.242
acetate	-0.527	0.0
glucAc	-0.61	0.082
Rv0950ko	0.121	0.597
Rv1096ko	0.754	1.252
Rv3684ko	1.087	-0.239
delta_otsA_trehalose	0.658	-1.073