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 Rv3730c/-

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

	Rv2715/-	Rv3730c/-
Fe_supp_jason_reseq	-0.508	-0.541
low_pH_jason_reseq	0.796	0.095
NO_jason_reseq	-0.646	0.436
B6_jason_reseq	-0.542	-0.565
MHCII_jason_reseq	0.346	-0.352
Isoniazid02	1.224	0.413
Rifampicin4	-0.504	0.154
Ethambutol3	2.932	1.653
Meropenem3	2.498	0.229
Vancomycin16	0.0	-0.159
Rv2680_day32	-0.73	0.113
H37Rv_KO_MarP	0.223	0.165
hypoxia_3wks	-0.116	0.259
hypoxia_6wks	0.175	0.685
glycerol	-0.471	0.012
cholesterol	4.799	1.229
AJ	-0.024	-0.499
Bibs02	-0.223	-0.367
Bibs02c	1.516	0.432
BL6	0.26	0.419
BL6a	1.24	0.077
BXD01	0.314	-0.217
BXD010	1.166	-0.075
BXD011	0.642	0.852
BXD03	0.349	0.046
BXD04	0.809	0.048
BXD05	0.369	0.226
BXD06	0.366	0.096
BXD07	0.357	0.099
BXD08	0.448	0.23
BXD09	0.788	0.023
CAST	-0.28	-0.324
CCcont	0.348	0.0
DS01	0.429	0.305
DS02	0.132	-0.038
DS04	0.682	0.472
DS0c	0.046	0.459
GP01	0.804	0.18
GP02	0.516	-0.345
GP0c	0.387	0.127
NOD	1.787	0.705
NZO	-0.964	-0.166
PWK	0.158	0.243
H37Rv_KO_CtpC	0.607	-0.304
H37Rv_KO_CtpD	0.185	-0.059
H37Rv_KO_Rv1272	0.558	0.217
H37Rv_KO_SugABC	0.898	1.085
H37Rv_KO_MbtN	1.101	0.149
Trans05	1.278	0.08
macrophage_unactivated	0.3	0.025
IL1	-0.065	-0.234
Rapamycin	0.353	-0.071
Tcell	0.176	-0.179
GMCSF	-0.148	-0.124
IFNab	-0.133	-0.466
IFNg	0.644	-0.388
IFNg_GMCSF1	-0.358	-0.223
Rv1432_day32	-0.499	0.583
Rv1565c_day32	-0.655	0.382
secA2_input	-0.11	0.03
delta_Rv3594	0.728	-0.104
delta_Rv3717	0.151	-0.031
delta_Rv3811	1.169	0.309
delta_Rv0954	0.783	-0.353
PonA1	0.386	0.383
EccD1_KO	1.095	0.02
EspI_KO	0.95	0.265
PE35_KO	1.476	0.111
PPE68_KO	0.784	0.259
glycerol2	-0.476	0.156
lignocerate	0.102	0.387
oleate	-0.216	-0.597
phosphatidylcholine	0.0	-0.09
acetate	0.206	-0.168
glucAc	0.481	0.262
Rv0950ko	-0.109	0.163
Rv1096ko	-0.145	-0.449
Rv3684ko	-0.318	0.151
delta_otsA_trehalose	0.879	-1.599