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 Rv1526c/-

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

	Rv1141c/echA11	Rv1526c/-
Fe_supp_jason_reseq	-1.143	0.082
low_pH_jason_reseq	-1.589	0.043
NO_jason_reseq	0.365	0.331
B6_jason_reseq	-0.567	-2.248
MHCII_jason_reseq	-0.357	-1.614
Isoniazid02	-0.201	0.047
Rifampicin4	0.872	-0.325
Ethambutol3	-0.078	-0.212
Meropenem3	0.399	-0.165
Vancomycin16	-0.151	-0.133
Rv2680_day32	-0.615	-0.548
H37Rv_KO_MarP	0.072	1.37
hypoxia_3wks	-0.148	-0.558
hypoxia_6wks	0.104	0.0
glycerol	0.478	0.243
cholesterol	-0.485	-0.038
AJ	0.121	0.225
Bibs02	-0.152	-0.415
Bibs02c	1.144	0.344
BL6	0.694	2.032
BL6a	1.115	1.277
BXD01	0.577	1.115
BXD010	0.13	1.082
BXD011	2.406	2.02
BXD03	0.515	1.063
BXD04	0.477	0.426
BXD05	-0.083	1.058
BXD06	0.221	0.967
BXD07	0.805	1.868
BXD08	0.228	0.575
BXD09	0.496	1.249
CAST	0.582	0.707
CCcont	0.401	1.423
DS01	-0.031	0.633
DS02	-0.244	0.748
DS04	0.013	0.402
DS0c	0.057	-0.295
GP01	1.232	0.727
GP02	0.471	1.017
GP0c	0.902	1.754
NOD	0.496	1.154
NZO	-0.361	0.1
PWK	0.423	-0.156
H37Rv_KO_CtpC	0.81	1.462
H37Rv_KO_CtpD	1.174	1.973
H37Rv_KO_Rv1272	0.686	2.07
H37Rv_KO_SugABC	1.109	1.981
H37Rv_KO_MbtN	0.806	0.479
Trans05	0.467	1.657
macrophage_unactivated	0.363	0.71
IL1	0.163	0.095
Rapamycin	0.129	0.648
Tcell	0.837	0.909
GMCSF	0.977	0.594
IFNab	0.021	0.239
IFNg	-0.115	1.056
IFNg_GMCSF1	0.955	0.05
Rv1432_day32	-0.292	-0.87
Rv1565c_day32	0.325	-0.291
secA2_input	-0.063	-0.482
delta_Rv3594	0.285	0.895
delta_Rv3717	0.159	0.029
delta_Rv3811	0.7	1.17
delta_Rv0954	0.424	0.652
PonA1	-0.504	1.392
EccD1_KO	1.5	0.835
EspI_KO	1.483	0.967
PE35_KO	0.718	0.989
PPE68_KO	1.488	0.95
glycerol2	0.921	0.376
lignocerate	1.108	1.333
oleate	1.231	-1.157
phosphatidylcholine	1.325	0.758
acetate	0.545	1.403
glucAc	0.461	1.533
Rv0950ko	-0.353	-0.265
Rv1096ko	0.103	-0.407
Rv3684ko	-0.508	-0.704
delta_otsA_trehalose	1.225	1.158