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 Rv1141c/echA11:

update plot	correlation	link to info on gene
Rv1526c/-	(cc=0.5088)	info on Rv1526c/-
Rv2425c/-	(cc=0.488)	info on Rv2425c/-
Rv3016/lpqA	(cc=0.4866)	info on Rv3016/lpqA
Rv1787/PPE25	(cc=0.4835)	info on Rv1787/PPE25
Rv2147c/-	(cc=0.4766)	info on Rv2147c/-
Rv2345/-	(cc=0.4695)	info on Rv2345/-
Rv3190A/-	(cc=0.4649)	info on Rv3190A/-
Rv1000c/-	(cc=0.4537)	info on Rv1000c/-
Rv1981c/nrdF1	(cc=0.4511)	info on Rv1981c/nrdF1
Rv2300c/-	(cc=0.4476)	info on Rv2300c/-

Correlation of Rv1141c/echA11 with Rv2425c/-

Normalized LFCs for Rv1141c/echA11:
(description and provenance of datasets)

	Rv1141c/echA11	Rv2425c/-
Fe_supp_jason_reseq	-1.143	-1.459
low_pH_jason_reseq	-1.589	-1.082
NO_jason_reseq	0.365	0.635
B6_jason_reseq	-0.567	-1.089
MHCII_jason_reseq	-0.357	-1.055
Isoniazid02	-0.201	-0.627
Rifampicin4	0.872	-0.393
Ethambutol3	-0.078	-0.254
Meropenem3	0.399	-0.195
Vancomycin16	-0.151	0.064
Rv2680_day32	-0.615	-0.812
H37Rv_KO_MarP	0.072	0.244
hypoxia_3wks	-0.148	-0.327
hypoxia_6wks	0.104	-0.148
glycerol	0.478	0.399
cholesterol	-0.485	0.233
AJ	0.121	0.955
Bibs02	-0.152	0.649
Bibs02c	1.144	0.235
BL6	0.694	1.008
BL6a	1.115	0.501
BXD01	0.577	0.323
BXD010	0.13	0.605
BXD011	2.406	0.371
BXD03	0.515	-0.009
BXD04	0.477	-0.104
BXD05	-0.083	0.21
BXD06	0.221	0.201
BXD07	0.805	0.729
BXD08	0.228	0.009
BXD09	0.496	0.076
CAST	0.582	0.594
CCcont	0.401	0.341
DS01	-0.031	-0.296
DS02	-0.244	-0.463
DS04	0.013	0.173
DS0c	0.057	-0.671
GP01	1.232	0.149
GP02	0.471	-0.33
GP0c	0.902	0.474
NOD	0.496	-0.189
NZO	-0.361	0.465
PWK	0.423	0.756
H37Rv_KO_CtpC	0.81	1.982
H37Rv_KO_CtpD	1.174	0.997
H37Rv_KO_Rv1272	0.686	0.364
H37Rv_KO_SugABC	1.109	0.374
H37Rv_KO_MbtN	0.806	1.325
Trans05	0.467	0.99
macrophage_unactivated	0.363	-0.464
IL1	0.163	-0.344
Rapamycin	0.129	-0.175
Tcell	0.837	-0.137
GMCSF	0.977	0.09
IFNab	0.021	-0.683
IFNg	-0.115	-0.874
IFNg_GMCSF1	0.955	-0.11
Rv1432_day32	-0.292	0.227
Rv1565c_day32	0.325	-0.058
secA2_input	-0.063	0.357
delta_Rv3594	0.285	0.474
delta_Rv3717	0.159	0.659
delta_Rv3811	0.7	0.202
delta_Rv0954	0.424	0.401
PonA1	-0.504	0.671
EccD1_KO	1.5	0.806
EspI_KO	1.483	0.724
PE35_KO	0.718	0.846
PPE68_KO	1.488	0.298
glycerol2	0.921	0.471
lignocerate	1.108	1.148
oleate	1.231	-0.187
phosphatidylcholine	1.325	1.036
acetate	0.545	1.325
glucAc	0.461	0.61
Rv0950ko	-0.353	0.268
Rv1096ko	0.103	-0.157
Rv3684ko	-0.508	0.033
delta_otsA_trehalose	1.225	-0.544