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 Rv0147/-:

update plot	correlation	link to info on gene
Rv1411c/lprG	(cc=0.4297)	info on Rv1411c/lprG
Rv1780/-	(cc=0.4268)	info on Rv1780/-
Rv3784/-	(cc=0.4248)	info on Rv3784/-
Rv1892/-	(cc=0.416)	info on Rv1892/-
Rv2351c/plcA	(cc=0.4046)	info on Rv2351c/plcA
Rv1885c/-	(cc=0.4036)	info on Rv1885c/-
Rv0207c/-	(cc=0.3923)	info on Rv0207c/-
Rv3486/-	(cc=0.3898)	info on Rv3486/-
Rv0473/-	(cc=0.3815)	info on Rv0473/-
Rv0476/-	(cc=0.3814)	info on Rv0476/-

Correlation of Rv0147/- with Rv0476/-

Normalized LFCs for Rv0147/-:
(description and provenance of datasets)

	Rv0147/-	Rv0476/-
Fe_supp_jason_reseq	0.919	-0.401
low_pH_jason_reseq	-1.782	-0.773
NO_jason_reseq	-1.129	0.092
B6_jason_reseq	-0.01	-1.211
MHCII_jason_reseq	1.187	0.065
Isoniazid02	0.639	0.955
Rifampicin4	-0.777	0.736
Ethambutol3	0.246	1.192
Meropenem3	0.262	1.353
Vancomycin16	-0.584	0.722
Rv2680_day32	0.786	1.297
H37Rv_KO_MarP	0.13	-1.099
hypoxia_3wks	1.069	1.105
hypoxia_6wks	0.9	1.117
glycerol	1.162	-2.055
cholesterol	0.14	-1.374
AJ	0.355	-0.376
Bibs02	-0.318	-0.411
Bibs02c	0.194	-1.184
BL6	-0.157	-0.434
BL6a	0.066	-0.535
BXD01	0.268	0.481
BXD010	0.521	0.742
BXD011	-0.06	0.567
BXD03	0.352	0.28
BXD04	0.385	0.913
BXD05	0.15	0.417
BXD06	0.0	0.391
BXD07	0.133	0.877
BXD08	0.287	0.675
BXD09	-0.073	0.248
CAST	-0.459	-1.175
CCcont	-0.013	0.057
DS01	-1.193	0.05
DS02	0.235	-0.213
DS04	-1.649	0.624
DS0c	-0.965	-0.561
GP01	0.615	0.17
GP02	0.963	0.266
GP0c	0.729	0.633
NOD	-0.029	0.392
NZO	0.465	0.5
PWK	0.959	-0.036
H37Rv_KO_CtpC	-0.135	-0.065
H37Rv_KO_CtpD	0.132	0.833
H37Rv_KO_Rv1272	0.255	0.087
H37Rv_KO_SugABC	-0.069	0.658
H37Rv_KO_MbtN	1.51	1.183
Trans05	0.593	0.228
macrophage_unactivated	0.11	0.312
IL1	-1.02	-0.967
Rapamycin	0.288	-0.184
Tcell	-0.795	-0.244
GMCSF	0.119	0.211
IFNab	1.366	0.84
IFNg	-0.494	0.708
IFNg_GMCSF1	-0.597	0.06
Rv1432_day32	0.619	1.622
Rv1565c_day32	0.693	-0.295
secA2_input	0.094	-1.035
delta_Rv3594	-0.038	-0.318
delta_Rv3717	0.233	0.38
delta_Rv3811	0.175	0.489
delta_Rv0954	-0.173	-0.881
PonA1	-0.5	-0.275
EccD1_KO	-0.562	-1.496
EspI_KO	-0.756	-0.299
PE35_KO	-0.951	-1.423
PPE68_KO	-0.934	-0.995
glycerol2	1.251	2.023
lignocerate	0.857	0.267
oleate	0.571	2.439
phosphatidylcholine	0.472	0.097
acetate	0.346	-0.04
glucAc	0.194	-0.154
Rv0950ko	0.075	-0.413
Rv1096ko	-0.377	-0.929
Rv3684ko	-0.357	-0.38
delta_otsA_trehalose	-0.577	-0.738