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 Rv2656c/-:

update plot	correlation	link to info on gene
Rv2330c/lppP	(cc=0.566)	info on Rv2330c/lppP
Rv2118c/-	(cc=0.5592)	info on Rv2118c/-
Rv2723/-	(cc=0.5565)	info on Rv2723/-
Rv0814c/sseC2	(cc=0.5387)	info on Rv0814c/sseC2
Rv1072/-	(cc=0.5011)	info on Rv1072/-
Rv0823c/-	(cc=0.4983)	info on Rv0823c/-
Rv3419c/gcp	(cc=0.4946)	info on Rv3419c/gcp
Rv2161c/-	(cc=0.4783)	info on Rv2161c/-
Rv2500c/fadE19	(cc=0.475)	info on Rv2500c/fadE19
Rv2398c/cysW	(cc=0.4733)	info on Rv2398c/cysW

Correlation of Rv2656c/- with Rv2118c/-

Normalized LFCs for Rv2656c/-:
(description and provenance of datasets)

	Rv2656c/-	Rv2118c/-
Fe_supp_jason_reseq	-0.043	-0.576
low_pH_jason_reseq	0.045	0.709
NO_jason_reseq	1.738	1.142
B6_jason_reseq	1.599	1.1
MHCII_jason_reseq	0.99	-0.633
Isoniazid02	0.354	1.505
Rifampicin4	0.39	-0.712
Ethambutol3	2.977	0.675
Meropenem3	0.139	-0.843
Vancomycin16	0.04	-0.637
Rv2680_day32	0.658	-0.267
H37Rv_KO_MarP	0.107	-0.917
hypoxia_3wks	-0.801	-1.101
hypoxia_6wks	0.121	-0.056
glycerol	1.04	-0.284
cholesterol	0.209	-1.711
AJ	1.768	0.965
Bibs02	0.042	0.709
Bibs02c	-0.221	0.599
BL6	0.18	-0.458
BL6a	0.573	0.149
BXD01	1.882	0.72
BXD010	1.409	0.631
BXD011	2.756	0.071
BXD03	1.517	0.424
BXD04	2.194	0.727
BXD05	2.084	0.459
BXD06	1.44	0.411
BXD07	1.547	-0.112
BXD08	1.072	-0.079
BXD09	1.736	0.164
CAST	3.48	1.615
CCcont	0.606	-0.503
DS01	0.108	0.631
DS02	0.099	1.418
DS04	1.158	1.315
DS0c	1.023	0.707
GP01	-0.707	0.232
GP02	-1.661	-0.129
GP0c	-0.291	-0.177
NOD	1.103	1.077
NZO	1.699	0.354
PWK	1.8	0.512
H37Rv_KO_CtpC	2.318	0.846
H37Rv_KO_CtpD	1.646	0.006
H37Rv_KO_Rv1272	1.626	0.226
H37Rv_KO_SugABC	1.237	0.398
H37Rv_KO_MbtN	-0.55	0.33
Trans05	2.493	1.255
macrophage_unactivated	0.347	-0.022
IL1	1.593	-0.581
Rapamycin	0.534	-0.39
Tcell	0.541	-0.978
GMCSF	0.158	-0.298
IFNab	1.058	-1.01
IFNg	1.371	-0.224
IFNg_GMCSF1	1.207	0.597
Rv1432_day32	0.207	-1.425
Rv1565c_day32	0.054	0.13
secA2_input	1.119	0.351
delta_Rv3594	-0.974	-2.169
delta_Rv3717	-1.013	-1.544
delta_Rv3811	-1.423	-1.89
delta_Rv0954	-0.204	-1.101
PonA1	-0.652	-0.584
EccD1_KO	2.345	0.556
EspI_KO	0.416	0.04
PE35_KO	0.201	-0.327
PPE68_KO	1.449	-0.189
glycerol2	-0.168	-0.052
lignocerate	0.472	-0.532
oleate	-0.841	-0.031
phosphatidylcholine	0.123	-0.23
acetate	0.806	0.234
glucAc	0.641	-0.276
Rv0950ko	-0.259	-0.446
Rv1096ko	-1.258	-0.47
Rv3684ko	-1.087	-0.511
delta_otsA_trehalose	0.114	-0.023