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 Rv1313c/-

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

	Rv0546c/-	Rv1313c/-
Fe_supp_jason_reseq	-0.085	-0.309
low_pH_jason_reseq	-1.691	-0.36
NO_jason_reseq	-0.318	0.315
B6_jason_reseq	0.345	-0.261
MHCII_jason_reseq	0.193	0.267
Isoniazid02	0.016	0.157
Rifampicin4	1.614	0.563
Ethambutol3	0.377	0.985
Meropenem3	0.714	0.174
Vancomycin16	1.244	0.106
Rv2680_day32	-0.721	-0.277
H37Rv_KO_MarP	-0.158	-0.062
hypoxia_3wks	1.998	0.447
hypoxia_6wks	1.422	-0.031
glycerol	1.352	0.707
cholesterol	1.157	0.404
AJ	-0.012	0.753
Bibs02	0.307	0.37
Bibs02c	1.084	0.25
BL6	-0.634	-0.355
BL6a	0.673	0.174
BXD01	-0.339	0.09
BXD010	-0.396	0.032
BXD011	1.404	0.971
BXD03	-0.211	0.168
BXD04	0.295	-0.233
BXD05	0.371	-0.106
BXD06	-0.073	-0.091
BXD07	-0.576	0.454
BXD08	-0.374	0.269
BXD09	-0.677	-0.158
CAST	0.279	0.532
CCcont	-0.251	-0.185
DS01	-0.31	-0.135
DS02	0.698	0.25
DS04	-0.614	0.433
DS0c	-0.011	0.346
GP01	0.293	0.735
GP02	0.027	0.133
GP0c	-0.178	-0.605
NOD	0.693	0.591
NZO	-0.646	0.108
PWK	0.719	0.784
H37Rv_KO_CtpC	-1.051	0.194
H37Rv_KO_CtpD	0.207	-0.738
H37Rv_KO_Rv1272	-0.844	0.212
H37Rv_KO_SugABC	-0.412	1.0
H37Rv_KO_MbtN	1.01	1.437
Trans05	-0.709	0.15
macrophage_unactivated	-1.376	-0.328
IL1	-1.688	0.039
Rapamycin	-1.252	-0.577
Tcell	-0.736	-1.157
GMCSF	0.026	-0.187
IFNab	0.644	-0.484
IFNg	-0.77	-0.208
IFNg_GMCSF1	-2.093	-0.437
Rv1432_day32	1.572	0.267
Rv1565c_day32	-1.366	-0.016
secA2_input	-0.308	0.028
delta_Rv3594	1.574	0.86
delta_Rv3717	1.432	0.792
delta_Rv3811	1.459	0.836
delta_Rv0954	0.381	0.416
PonA1	0.304	0.392
EccD1_KO	1.296	0.345
EspI_KO	1.417	0.63
PE35_KO	2.1	1.105
PPE68_KO	2.019	0.765
glycerol2	0.408	-0.447
lignocerate	0.023	-0.462
oleate	-1.141	-0.763
phosphatidylcholine	-0.563	-0.482
acetate	-0.527	-0.188
glucAc	-0.61	0.493
Rv0950ko	0.121	0.534
Rv1096ko	0.754	0.407
Rv3684ko	1.087	0.442
delta_otsA_trehalose	0.658	-0.119