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 Rv2269c/-:

update plot	correlation	link to info on gene
Rv2884/-	(cc=0.4365)	info on Rv2884/-
Rv2436/rbsK	(cc=0.409)	info on Rv2436/rbsK
Rv2674/msrB	(cc=0.4039)	info on Rv2674/msrB
Rv1615/-	(cc=0.396)	info on Rv1615/-
Rv2810c/-	(cc=0.3942)	info on Rv2810c/-
Rv2274A/mazE8	(cc=0.3838)	info on Rv2274A/mazE8
Rv0798c/cfp29	(cc=0.3705)	info on Rv0798c/cfp29
Rv2840c/-	(cc=0.3691)	info on Rv2840c/-
Rv1574/-	(cc=0.3683)	info on Rv1574/-
Rv1598c/-	(cc=0.3604)	info on Rv1598c/-

Correlation of Rv2269c/- with Rv2674/msrB

Normalized LFCs for Rv2269c/-:
(description and provenance of datasets)

	Rv2269c/-	Rv2674/msrB
Fe_supp_jason_reseq	-0.999	-0.076
low_pH_jason_reseq	0.766	-1.178
NO_jason_reseq	-0.373	0.121
B6_jason_reseq	-0.527	-1.342
MHCII_jason_reseq	-0.244	-1.309
Isoniazid02	0.038	0.064
Rifampicin4	1.194	-0.823
Ethambutol3	-0.308	-0.305
Meropenem3	0.09	1.751
Vancomycin16	0.326	-0.143
Rv2680_day32	1.417	0.601
H37Rv_KO_MarP	0.116	-0.834
hypoxia_3wks	0.63	0.463
hypoxia_6wks	-1.109	0.284
glycerol	1.2	0.061
cholesterol	0.55	0.424
AJ	-0.156	-0.365
Bibs02	0.403	0.109
Bibs02c	-0.497	-0.694
BL6	0.788	-0.164
BL6a	-0.595	0.713
BXD01	0.648	0.169
BXD010	-1.06	0.095
BXD011	-0.694	0.857
BXD03	0.645	0.641
BXD04	0.222	0.152
BXD05	-0.697	0.563
BXD06	0.258	0.579
BXD07	0.444	0.722
BXD08	0.459	0.458
BXD09	0.111	0.436
CAST	0.567	0.267
CCcont	0.633	0.402
DS01	0.221	0.323
DS02	0.329	0.52
DS04	1.883	0.416
DS0c	0.448	0.841
GP01	-0.653	-0.228
GP02	-0.409	-0.429
GP0c	0.686	1.396
NOD	0.747	0.0
NZO	-0.316	-0.423
PWK	-1.124	0.117
H37Rv_KO_CtpC	0.461	0.522
H37Rv_KO_CtpD	-1.755	-1.524
H37Rv_KO_Rv1272	1.378	0.501
H37Rv_KO_SugABC	0.376	0.892
H37Rv_KO_MbtN	1.539	0.538
Trans05	2.132	0.752
macrophage_unactivated	0.439	0.527
IL1	-0.819	0.199
Rapamycin	0.249	1.126
Tcell	0.635	0.912
GMCSF	0.969	0.319
IFNab	0.245	1.243
IFNg	-0.946	0.029
IFNg_GMCSF1	1.153	0.622
Rv1432_day32	1.014	1.055
Rv1565c_day32	-0.747	-0.294
secA2_input	-0.853	-0.977
delta_Rv3594	-0.477	0.344
delta_Rv3717	-1.037	-0.323
delta_Rv3811	-1.41	-0.269
delta_Rv0954	-0.36	0.58
PonA1	-0.563	-0.057
EccD1_KO	-0.069	1.529
EspI_KO	1.46	2.096
PE35_KO	0.939	0.63
PPE68_KO	1.241	1.2
glycerol2	0.675	0.221
lignocerate	0.469	-0.194
oleate	0.308	0.023
phosphatidylcholine	0.648	0.129
acetate	-0.066	-0.279
glucAc	-0.488	-0.501
Rv0950ko	-0.573	-0.127
Rv1096ko	-0.305	-0.528
Rv3684ko	0.596	-0.773
delta_otsA_trehalose	-0.247	0.698