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 Rv2394/ggtB

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

	Rv2715/-	Rv2394/ggtB
Fe_supp_jason_reseq	-0.508	-1.01
low_pH_jason_reseq	0.796	-0.616
NO_jason_reseq	-0.646	-0.047
B6_jason_reseq	-0.542	-0.383
MHCII_jason_reseq	0.346	-0.607
Isoniazid02	1.224	0.581
Rifampicin4	-0.504	0.764
Ethambutol3	2.932	2.847
Meropenem3	2.498	1.294
Vancomycin16	0.0	0.565
Rv2680_day32	-0.73	-1.556
H37Rv_KO_MarP	0.223	0.212
hypoxia_3wks	-0.116	0.211
hypoxia_6wks	0.175	0.111
glycerol	-0.471	0.219
cholesterol	4.799	3.29
AJ	-0.024	0.356
Bibs02	-0.223	0.34
Bibs02c	1.516	0.053
BL6	0.26	-0.117
BL6a	1.24	0.135
BXD01	0.314	0.016
BXD010	1.166	-0.418
BXD011	0.642	0.523
BXD03	0.349	0.259
BXD04	0.809	0.454
BXD05	0.369	0.115
BXD06	0.366	-0.153
BXD07	0.357	0.337
BXD08	0.448	0.344
BXD09	0.788	-0.14
CAST	-0.28	0.058
CCcont	0.348	-0.214
DS01	0.429	0.229
DS02	0.132	0.121
DS04	0.682	1.04
DS0c	0.046	0.198
GP01	0.804	0.043
GP02	0.516	0.164
GP0c	0.387	0.096
NOD	1.787	0.179
NZO	-0.964	0.496
PWK	0.158	0.323
H37Rv_KO_CtpC	0.607	-0.011
H37Rv_KO_CtpD	0.185	0.689
H37Rv_KO_Rv1272	0.558	0.044
H37Rv_KO_SugABC	0.898	0.608
H37Rv_KO_MbtN	1.101	0.599
Trans05	1.278	0.389
macrophage_unactivated	0.3	0.366
IL1	-0.065	0.4
Rapamycin	0.353	-0.387
Tcell	0.176	0.287
GMCSF	-0.148	-0.19
IFNab	-0.133	-0.348
IFNg	0.644	-0.166
IFNg_GMCSF1	-0.358	-0.295
Rv1432_day32	-0.499	-0.128
Rv1565c_day32	-0.655	-0.019
secA2_input	-0.11	-0.26
delta_Rv3594	0.728	-0.444
delta_Rv3717	0.151	-0.927
delta_Rv3811	1.169	-0.338
delta_Rv0954	0.783	0.736
PonA1	0.386	0.509
EccD1_KO	1.095	0.763
EspI_KO	0.95	-0.031
PE35_KO	1.476	0.761
PPE68_KO	0.784	0.682
glycerol2	-0.476	0.59
lignocerate	0.102	-0.108
oleate	-0.216	0.713
phosphatidylcholine	0.0	0.363
acetate	0.206	-0.404
glucAc	0.481	-0.315
Rv0950ko	-0.109	-0.211
Rv1096ko	-0.145	-0.434
Rv3684ko	-0.318	-0.164
delta_otsA_trehalose	0.879	1.096