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 Rv1012/-:

update plot	correlation	link to info on gene
Rv2020c/-	(cc=0.5169)	info on Rv2020c/-
Rv3482c/-	(cc=0.4805)	info on Rv3482c/-
Rv0044c/-	(cc=0.4694)	info on Rv0044c/-
Rv0325/-	(cc=0.4644)	info on Rv0325/-
Rv2076c/-	(cc=0.4616)	info on Rv2076c/-
Rv2382c/mbtC	(cc=0.4565)	info on Rv2382c/mbtC
Rv2651c/-	(cc=0.4451)	info on Rv2651c/-
Rv2064/cobG	(cc=0.4387)	info on Rv2064/cobG
Rv1858/modB	(cc=0.4378)	info on Rv1858/modB
Rv1632c/-	(cc=0.4376)	info on Rv1632c/-

Correlation of Rv1012/- with Rv0044c/-

Normalized LFCs for Rv1012/-:
(description and provenance of datasets)

	Rv1012/-	Rv0044c/-
Fe_supp_jason_reseq	1.274	0.218
low_pH_jason_reseq	-0.572	0.04
NO_jason_reseq	-0.714	-0.47
B6_jason_reseq	1.353	0.346
MHCII_jason_reseq	0.593	0.656
Isoniazid02	0.509	0.141
Rifampicin4	0.441	0.742
Ethambutol3	2.008	0.804
Meropenem3	1.366	1.108
Vancomycin16	0.528	0.825
Rv2680_day32	-2.215	-1.564
H37Rv_KO_MarP	-0.229	0.405
hypoxia_3wks	-0.068	-0.032
hypoxia_6wks	0.624	0.165
glycerol	-0.044	0.218
cholesterol	0.682	-0.154
AJ	0.903	-0.217
Bibs02	-0.185	0.293
Bibs02c	-0.418	0.377
BL6	0.255	0.419
BL6a	-1.511	-0.098
BXD01	0.0	-0.228
BXD010	-0.502	-0.171
BXD011	-1.364	-0.513
BXD03	-1.125	-0.247
BXD04	-1.287	0.242
BXD05	-1.78	0.222
BXD06	-0.385	-0.161
BXD07	-0.286	-0.233
BXD08	0.18	-0.091
BXD09	-0.435	-0.16
CAST	1.155	0.082
CCcont	0.123	-0.159
DS01	1.03	0.496
DS02	1.119	0.446
DS04	-0.197	0.069
DS0c	0.746	0.57
GP01	0.403	0.236
GP02	-0.819	-0.35
GP0c	0.236	-0.113
NOD	0.408	0.093
NZO	0.776	0.172
PWK	0.834	0.294
H37Rv_KO_CtpC	-0.65	0.365
H37Rv_KO_CtpD	-1.724	0.222
H37Rv_KO_Rv1272	-0.632	0.065
H37Rv_KO_SugABC	-0.218	-0.611
H37Rv_KO_MbtN	-0.797	-1.208
Trans05	-0.872	-0.82
macrophage_unactivated	1.095	0.028
IL1	0.276	0.199
Rapamycin	0.199	0.255
Tcell	0.091	0.218
GMCSF	0.752	-0.483
IFNab	0.03	0.275
IFNg	1.216	0.535
IFNg_GMCSF1	0.204	0.858
Rv1432_day32	0.08	-0.312
Rv1565c_day32	-0.147	0.0
secA2_input	-0.817	-0.534
delta_Rv3594	-0.024	0.02
delta_Rv3717	1.279	0.352
delta_Rv3811	-0.122	-0.494
delta_Rv0954	0.735	0.376
PonA1	0.832	0.347
EccD1_KO	1.237	-0.358
EspI_KO	-0.471	-0.462
PE35_KO	0.222	-0.473
PPE68_KO	-1.232	-0.416
glycerol2	1.516	0.758
lignocerate	1.241	0.0
oleate	0.142	0.693
phosphatidylcholine	1.053	0.137
acetate	0.77	-0.329
glucAc	0.449	-0.151
Rv0950ko	-0.479	0.103
Rv1096ko	-0.651	0.235
Rv3684ko	-1.32	0.327
delta_otsA_trehalose	0.263	1.412