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 Rv1486c/-:

update plot	correlation	link to info on gene
Rv1830/-	(cc=0.5498)	info on Rv1830/-
Rv2519/PE26	(cc=0.5188)	info on Rv2519/PE26
Rv2129c/-	(cc=0.5143)	info on Rv2129c/-
Rv2948c/fadD22	(cc=0.4871)	info on Rv2948c/fadD22
Rv3161c/-	(cc=0.4625)	info on Rv3161c/-
Rv3158/nuoN	(cc=0.4603)	info on Rv3158/nuoN
Rv3521/-	(cc=0.4589)	info on Rv3521/-
Rv1918c/PPE35	(cc=0.4576)	info on Rv1918c/PPE35
Rv1787/PPE25	(cc=0.4554)	info on Rv1787/PPE25
Rv0844c/narL	(cc=0.4481)	info on Rv0844c/narL

Correlation of Rv1486c/- with Rv1830/-

Normalized LFCs for Rv1486c/-:
(description and provenance of datasets)

	Rv1486c/-	Rv1830/-
Fe_supp_jason_reseq	-0.081	-1.285
low_pH_jason_reseq	-1.501	-2.453
NO_jason_reseq	-1.197	-0.562
B6_jason_reseq	-1.249	-2.814
MHCII_jason_reseq	-1.146	-2.478
Isoniazid02	-0.918	-0.221
Rifampicin4	1.243	1.172
Ethambutol3	2.707	2.094
Meropenem3	0.188	0.519
Vancomycin16	0.886	0.0
Rv2680_day32	-0.521	0.0
H37Rv_KO_MarP	-0.109	-1.527
hypoxia_3wks	0.267	0.0
hypoxia_6wks	-0.591	0.0
glycerol	0.459	0.554
cholesterol	0.715	0.0
AJ	0.664	0.0
Bibs02	0.0	0.0
Bibs02c	0.396	0.0
BL6	0.341	0.0
BL6a	0.23	0.198
BXD01	0.881	0.0
BXD010	1.144	0.0
BXD011	0.3	0.243
BXD03	0.782	0.0
BXD04	-0.135	0.0
BXD05	0.911	0.135
BXD06	0.578	0.0
BXD07	0.435	0.0
BXD08	0.672	0.0
BXD09	0.433	0.0
CAST	0.881	0.0
CCcont	0.21	0.525
DS01	0.676	0.0
DS02	-0.192	0.0
DS04	0.305	0.0
DS0c	-0.104	0.0
GP01	-0.978	0.662
GP02	0.699	0.159
GP0c	0.723	1.663
NOD	-0.984	0.0
NZO	-0.657	0.0
PWK	-0.256	0.196
H37Rv_KO_CtpC	1.221	0.901
H37Rv_KO_CtpD	0.61	0.127
H37Rv_KO_Rv1272	2.207	2.25
H37Rv_KO_SugABC	1.103	0.0
H37Rv_KO_MbtN	1.722	0.897
Trans05	1.618	2.024
macrophage_unactivated	0.795	0.436
IL1	0.724	0.0
Rapamycin	0.623	0.0
Tcell	0.899	0.0
GMCSF	1.545	0.0
IFNab	0.514	0.0
IFNg	0.673	0.0
IFNg_GMCSF1	1.037	0.0
Rv1432_day32	-0.889	0.0
Rv1565c_day32	0.359	0.0
secA2_input	-0.733	0.167
delta_Rv3594	0.642	0.369
delta_Rv3717	0.43	1.055
delta_Rv3811	1.09	1.732
delta_Rv0954	0.601	-1.349
PonA1	-0.108	-0.675
EccD1_KO	0.562	0.0
EspI_KO	-0.242	-1.56
PE35_KO	0.368	-0.995
PPE68_KO	-0.106	-1.411
glycerol2	1.108	0.369
lignocerate	-0.865	0.168
oleate	-0.043	0.0
phosphatidylcholine	0.85	0.193
acetate	-1.042	0.229
glucAc	-0.995	0.605
Rv0950ko	0.262	-0.172
Rv1096ko	0.308	1.294
Rv3684ko	0.383	-0.187
delta_otsA_trehalose	1.266	-0.965