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 Rv3330/dacB1:

update plot	correlation	link to info on gene
Rv2190c/-	(cc=0.5632)	info on Rv2190c/-
Rv2696c/-	(cc=0.5628)	info on Rv2696c/-
Rv1006/-	(cc=0.5406)	info on Rv1006/-
Rv1159/pimE	(cc=0.5217)	info on Rv1159/pimE
Rv0431/-	(cc=0.5135)	info on Rv0431/-
Rv3790/dprE1	(cc=0.5052)	info on Rv3790/dprE1
Rv2525c/-	(cc=0.5012)	info on Rv2525c/-
Rv1111c/-	(cc=0.4934)	info on Rv1111c/-
Rv0497/-	(cc=0.4811)	info on Rv0497/-
Rv1701/-	(cc=0.4745)	info on Rv1701/-

Correlation of Rv3330/dacB1 with Rv1111c/-

Normalized LFCs for Rv3330/dacB1:
(description and provenance of datasets)

	Rv3330/dacB1	Rv1111c/-
Fe_supp_jason_reseq	-0.104	1.264
low_pH_jason_reseq	-0.55	-0.413
NO_jason_reseq	-0.381	1.945
B6_jason_reseq	-0.431	-0.818
MHCII_jason_reseq	0.622	-0.503
Isoniazid02	-0.125	-0.885
Rifampicin4	-2.364	-2.32
Ethambutol3	0.266	0.069
Meropenem3	-1.579	0.183
Vancomycin16	-0.515	-3.507
Rv2680_day32	-0.82	-1.668
H37Rv_KO_MarP	-1.795	-2.198
hypoxia_3wks	0.271	0.439
hypoxia_6wks	-0.509	1.685
glycerol	0.173	-1.398
cholesterol	0.537	0.952
AJ	-0.343	-0.457
Bibs02	0.866	0.694
Bibs02c	0.211	0.317
BL6	0.492	1.483
BL6a	0.032	0.587
BXD01	0.0	0.552
BXD010	-0.201	2.133
BXD011	0.336	0.913
BXD03	0.296	0.934
BXD04	0.262	1.083
BXD05	0.631	2.061
BXD06	0.032	1.355
BXD07	0.482	1.154
BXD08	0.291	0.549
BXD09	0.0	0.848
CAST	-0.637	-0.903
CCcont	0.605	0.802
DS01	0.149	0.075
DS02	-0.49	0.035
DS04	0.136	1.003
DS0c	0.327	0.478
GP01	0.723	0.83
GP02	0.751	0.0
GP0c	0.649	1.352
NOD	-0.439	-1.778
NZO	-0.116	0.126
PWK	0.566	1.373
H37Rv_KO_CtpC	0.245	0.872
H37Rv_KO_CtpD	-0.649	-0.437
H37Rv_KO_Rv1272	0.515	0.469
H37Rv_KO_SugABC	0.664	1.22
H37Rv_KO_MbtN	0.92	2.108
Trans05	0.268	1.251
macrophage_unactivated	0.505	0.988
IL1	0.199	0.131
Rapamycin	0.635	0.491
Tcell	0.339	0.456
GMCSF	0.784	1.299
IFNab	0.227	1.859
IFNg	0.778	0.663
IFNg_GMCSF1	0.952	-0.145
Rv1432_day32	0.714	0.082
Rv1565c_day32	-0.167	0.619
secA2_input	-0.291	0.199
delta_Rv3594	-0.132	1.103
delta_Rv3717	-0.159	1.38
delta_Rv3811	-0.342	1.06
delta_Rv0954	-0.012	-1.398
PonA1	0.572	-1.316
EccD1_KO	-0.585	-0.697
EspI_KO	-1.469	-0.231
PE35_KO	-1.581	-0.753
PPE68_KO	-1.065	-0.442
glycerol2	-0.111	-0.398
lignocerate	0.106	-0.681
oleate	-0.293	-0.403
phosphatidylcholine	-0.398	-1.008
acetate	0.263	-0.086
glucAc	0.211	-0.578
Rv0950ko	-0.805	-0.142
Rv1096ko	-0.09	0.651
Rv3684ko	-0.648	-0.206
delta_otsA_trehalose	0.825	-0.474