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 Rv0740/-:

update plot	correlation	link to info on gene
Rv2644c/-	(cc=0.5214)	info on Rv2644c/-
Rv1574/-	(cc=0.5195)	info on Rv1574/-
Rv0584/-	(cc=0.4592)	info on Rv0584/-
Rv2848c/cobB	(cc=0.4519)	info on Rv2848c/cobB
Rv3175/-	(cc=0.4435)	info on Rv3175/-
Rv0926c/-	(cc=0.4291)	info on Rv0926c/-
Rv0902c/prrB	(cc=0.427)	info on Rv0902c/prrB
Rv0601c/-	(cc=0.4226)	info on Rv0601c/-
Rv0204c/-	(cc=0.418)	info on Rv0204c/-
Rv2901c/-	(cc=0.4103)	info on Rv2901c/-

Correlation of Rv0740/- with Rv0584/-

Normalized LFCs for Rv0740/-:
(description and provenance of datasets)

	Rv0740/-	Rv0584/-
Fe_supp_jason_reseq	0.069	-0.298
low_pH_jason_reseq	1.802	-0.043
NO_jason_reseq	0.774	0.557
B6_jason_reseq	1.02	0.283
MHCII_jason_reseq	0.233	-0.013
Isoniazid02	0.989	-0.047
Rifampicin4	0.087	0.027
Ethambutol3	1.16	1.254
Meropenem3	0.688	-0.131
Vancomycin16	0.17	0.321
Rv2680_day32	-1.013	0.102
H37Rv_KO_MarP	-0.027	-0.037
hypoxia_3wks	-1.854	-0.092
hypoxia_6wks	-1.063	0.161
glycerol	-1.09	0.0
cholesterol	-0.158	-0.1
AJ	-0.345	0.187
Bibs02	-0.901	0.015
Bibs02c	-0.203	-0.018
BL6	0.712	0.41
BL6a	0.089	0.278
BXD01	0.428	0.361
BXD010	-0.781	0.412
BXD011	0.235	0.345
BXD03	0.197	0.033
BXD04	0.826	0.174
BXD05	0.525	0.189
BXD06	0.031	0.461
BXD07	0.557	0.428
BXD08	0.465	0.253
BXD09	-0.218	0.443
CAST	0.566	0.29
CCcont	0.195	0.326
DS01	0.296	0.19
DS02	0.147	-0.036
DS04	0.358	-0.049
DS0c	0.347	0.273
GP01	-1.157	0.261
GP02	-0.877	-0.007
GP0c	-0.753	-0.25
NOD	0.039	0.316
NZO	-1.503	0.098
PWK	-0.215	0.388
H37Rv_KO_CtpC	-1.662	-0.395
H37Rv_KO_CtpD	0.264	-0.122
H37Rv_KO_Rv1272	-0.317	0.364
H37Rv_KO_SugABC	-0.969	0.517
H37Rv_KO_MbtN	-0.706	0.411
Trans05	-0.284	0.404
macrophage_unactivated	1.925	0.366
IL1	0.406	0.205
Rapamycin	1.178	0.387
Tcell	-0.147	0.319
GMCSF	0.689	0.404
IFNab	0.29	0.209
IFNg	1.267	0.69
IFNg_GMCSF1	3.02	0.757
Rv1432_day32	-0.222	0.372
Rv1565c_day32	-1.579	0.311
secA2_input	-1.105	-0.881
delta_Rv3594	-1.444	-0.021
delta_Rv3717	-0.789	-0.142
delta_Rv3811	-1.022	-0.021
delta_Rv0954	0.15	0.168
PonA1	-0.668	0.193
EccD1_KO	-0.141	0.0
EspI_KO	0.0	0.362
PE35_KO	0.216	0.741
PPE68_KO	0.186	0.595
glycerol2	-0.129	0.179
lignocerate	0.0	0.623
oleate	-1.602	-0.489
phosphatidylcholine	-0.384	0.311
acetate	0.69	0.535
glucAc	0.868	0.668
Rv0950ko	-0.292	-0.317
Rv1096ko	0.407	0.1
Rv3684ko	-0.183	-0.111
delta_otsA_trehalose	-0.138	0.256