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 Rv2715/-:

update plot	correlation	link to info on gene
Rv2394/ggtB	(cc=0.6425)	info on Rv2394/ggtB
Rv0338c/-	(cc=0.5414)	info on Rv0338c/-
Rv2268c/cyp128	(cc=0.4909)	info on Rv2268c/cyp128
Rv2189c/-	(cc=0.4775)	info on Rv2189c/-
Rv0373c/-	(cc=0.4709)	info on Rv0373c/-
Rv1317c/alkA	(cc=0.4611)	info on Rv1317c/alkA
Rv3730c/-	(cc=0.4507)	info on Rv3730c/-
Rv0069c/sdaA	(cc=0.4477)	info on Rv0069c/sdaA
Rv2962c/-	(cc=0.437)	info on Rv2962c/-
Rv0797/-	(cc=0.4327)	info on Rv0797/-

Correlation of Rv2715/- with Rv2189c/-

Normalized LFCs for Rv2715/-:
(description and provenance of datasets)

	Rv2715/-	Rv2189c/-
Fe_supp_jason_reseq	-0.508	1.318
low_pH_jason_reseq	0.796	-1.096
NO_jason_reseq	-0.646	-1.638
B6_jason_reseq	-0.542	0.787
MHCII_jason_reseq	0.346	-0.183
Isoniazid02	1.224	0.509
Rifampicin4	-0.504	-0.106
Ethambutol3	2.932	2.839
Meropenem3	2.498	0.795
Vancomycin16	0.0	0.565
Rv2680_day32	-0.73	-2.536
H37Rv_KO_MarP	0.223	-1.168
hypoxia_3wks	-0.116	-0.287
hypoxia_6wks	0.175	0.211
glycerol	-0.471	0.632
cholesterol	4.799	4.164
AJ	-0.024	0.242
Bibs02	-0.223	-0.878
Bibs02c	1.516	-0.728
BL6	0.26	-0.508
BL6a	1.24	-0.261
BXD01	0.314	-0.491
BXD010	1.166	-0.316
BXD011	0.642	-0.727
BXD03	0.349	0.402
BXD04	0.809	1.208
BXD05	0.369	-0.22
BXD06	0.366	-0.095
BXD07	0.357	-0.366
BXD08	0.448	0.22
BXD09	0.788	-1.018
CAST	-0.28	0.153
CCcont	0.348	-1.232
DS01	0.429	-0.688
DS02	0.132	0.131
DS04	0.682	-0.256
DS0c	0.046	-0.479
GP01	0.804	-0.453
GP02	0.516	0.447
GP0c	0.387	-1.054
NOD	1.787	-0.314
NZO	-0.964	0.0
PWK	0.158	-0.682
H37Rv_KO_CtpC	0.607	-1.469
H37Rv_KO_CtpD	0.185	0.309
H37Rv_KO_Rv1272	0.558	-0.069
H37Rv_KO_SugABC	0.898	0.11
H37Rv_KO_MbtN	1.101	-0.112
Trans05	1.278	-0.151
macrophage_unactivated	0.3	0.549
IL1	-0.065	0.036
Rapamycin	0.353	-0.565
Tcell	0.176	-0.375
GMCSF	-0.148	0.895
IFNab	-0.133	-0.19
IFNg	0.644	-0.845
IFNg_GMCSF1	-0.358	-0.405
Rv1432_day32	-0.499	-0.139
Rv1565c_day32	-0.655	-0.941
secA2_input	-0.11	-0.302
delta_Rv3594	0.728	-2.504
delta_Rv3717	0.151	-1.669
delta_Rv3811	1.169	-1.2
delta_Rv0954	0.783	-0.102
PonA1	0.386	-0.589
EccD1_KO	1.095	1.108
EspI_KO	0.95	0.742
PE35_KO	1.476	0.216
PPE68_KO	0.784	0.294
glycerol2	-0.476	-0.048
lignocerate	0.102	0.351
oleate	-0.216	0.138
phosphatidylcholine	0.0	0.223
acetate	0.206	-0.746
glucAc	0.481	-0.464
Rv0950ko	-0.109	-1.173
Rv1096ko	-0.145	-0.878
Rv3684ko	-0.318	0.344
delta_otsA_trehalose	0.879	0.965