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 Rv3091/-:

update plot	correlation	link to info on gene
Rv0330c/-	(cc=0.5366)	info on Rv0330c/-
Rv1736c/narX	(cc=0.52)	info on Rv1736c/narX
Rv2636/-	(cc=0.5037)	info on Rv2636/-
Rv2848c/cobB	(cc=0.4989)	info on Rv2848c/cobB
Rv2003c/-	(cc=0.4943)	info on Rv2003c/-
Rv0441c/-	(cc=0.4882)	info on Rv0441c/-
Rv3169/-	(cc=0.4839)	info on Rv3169/-
Rv1838c/vapC13	(cc=0.4833)	info on Rv1838c/vapC13
Rv2766c/-	(cc=0.4819)	info on Rv2766c/-
Rv1999c/-	(cc=0.4784)	info on Rv1999c/-

Correlation of Rv3091/- with Rv2636/-

Normalized LFCs for Rv3091/-:
(description and provenance of datasets)

	Rv3091/-	Rv2636/-
Fe_supp_jason_reseq	-1.219	-0.073
low_pH_jason_reseq	-0.467	-0.942
NO_jason_reseq	-0.047	0.071
B6_jason_reseq	-0.054	1.243
MHCII_jason_reseq	0.665	1.783
Isoniazid02	0.178	-0.55
Rifampicin4	-0.406	0.162
Ethambutol3	0.191	0.417
Meropenem3	-0.533	-1.06
Vancomycin16	-0.08	-0.642
Rv2680_day32	0.061	1.092
H37Rv_KO_MarP	0.09	0.013
hypoxia_3wks	-0.415	0.056
hypoxia_6wks	-0.758	-0.186
glycerol	-0.116	0.263
cholesterol	-0.216	0.048
AJ	0.402	0.345
Bibs02	0.159	0.177
Bibs02c	0.38	0.358
BL6	-0.504	-0.987
BL6a	-0.623	-0.442
BXD01	-0.765	-1.222
BXD010	-0.516	-0.989
BXD011	-0.615	-1.507
BXD03	-0.608	-1.037
BXD04	-0.355	-1.588
BXD05	-0.711	-0.968
BXD06	-0.744	-1.495
BXD07	-0.796	-1.077
BXD08	-0.096	-0.781
BXD09	-0.552	-1.87
CAST	-0.527	0.174
CCcont	-0.771	-1.767
DS01	0.183	0.399
DS02	0.377	0.578
DS04	0.512	-0.409
DS0c	-0.534	0.083
GP01	0.566	-0.456
GP02	-0.02	-0.744
GP0c	0.105	-0.677
NOD	-0.291	0.574
NZO	-0.627	0.126
PWK	-0.112	-0.057
H37Rv_KO_CtpC	-1.014	-1.77
H37Rv_KO_CtpD	-0.557	-0.581
H37Rv_KO_Rv1272	-0.129	-1.089
H37Rv_KO_SugABC	-0.57	-1.719
H37Rv_KO_MbtN	-1.173	-0.848
Trans05	0.226	-0.088
macrophage_unactivated	-0.581	-0.653
IL1	0.433	-0.445
Rapamycin	0.792	-0.546
Tcell	-0.482	-0.867
GMCSF	0.417	-0.446
IFNab	0.408	-1.155
IFNg	0.588	-0.136
IFNg_GMCSF1	0.273	-0.079
Rv1432_day32	-0.009	-0.16
Rv1565c_day32	0.6	0.062
secA2_input	0.341	1.133
delta_Rv3594	-0.089	-0.601
delta_Rv3717	-0.04	-0.271
delta_Rv3811	-0.793	-0.458
delta_Rv0954	-0.509	0.151
PonA1	-0.418	-0.324
EccD1_KO	0.056	-0.151
EspI_KO	0.214	0.271
PE35_KO	0.265	-0.079
PPE68_KO	0.467	-0.266
glycerol2	0.07	0.534
lignocerate	0.329	0.498
oleate	-0.013	0.303
phosphatidylcholine	0.427	0.709
acetate	-0.071	0.156
glucAc	-0.09	0.155
Rv0950ko	0.127	-0.027
Rv1096ko	0.666	-0.25
Rv3684ko	0.0	-0.662
delta_otsA_trehalose	0.276	0.719