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 Rv2285/-:

update plot	correlation	link to info on gene
Rv1276c/-	(cc=0.571)	info on Rv1276c/-
Rv1279/-	(cc=0.5662)	info on Rv1279/-
Rv2559c/-	(cc=0.5642)	info on Rv2559c/-
Rv2917/-	(cc=0.5631)	info on Rv2917/-
Rv3038c/-	(cc=0.563)	info on Rv3038c/-
Rv2701c/suhB	(cc=0.5548)	info on Rv2701c/suhB
Rv0263c/-	(cc=0.551)	info on Rv0263c/-
Rv2515c/-	(cc=0.5473)	info on Rv2515c/-
Rv1104/-	(cc=0.5438)	info on Rv1104/-
Rv0894/-	(cc=0.5321)	info on Rv0894/-

Correlation of Rv2285/- with Rv1104/-

Normalized LFCs for Rv2285/-:
(description and provenance of datasets)

	Rv2285/-	Rv1104/-
Fe_supp_jason_reseq	-0.933	-0.407
low_pH_jason_reseq	0.684	0.693
NO_jason_reseq	0.089	0.562
B6_jason_reseq	1.203	-0.878
MHCII_jason_reseq	-0.13	0.214
Isoniazid02	0.528	-0.049
Rifampicin4	0.043	0.246
Ethambutol3	0.331	-0.05
Meropenem3	1.58	0.884
Vancomycin16	0.085	0.501
Rv2680_day32	-0.21	0.478
H37Rv_KO_MarP	-0.341	-0.216
hypoxia_3wks	-0.12	0.526
hypoxia_6wks	-0.234	0.134
glycerol	0.152	-1.334
cholesterol	0.508	-1.007
AJ	0.303	0.025
Bibs02	0.419	-0.722
Bibs02c	-0.408	-0.761
BL6	-0.632	-2.36
BL6a	-0.426	-1.164
BXD01	-0.915	-0.906
BXD010	-0.453	-1.329
BXD011	-0.45	-0.877
BXD03	-0.5	-1.543
BXD04	-0.681	-0.041
BXD05	0.278	-0.628
BXD06	-0.208	-1.089
BXD07	-0.65	-0.973
BXD08	-0.696	-1.033
BXD09	-0.157	-1.008
CAST	0.334	0.33
CCcont	-1.587	-1.534
DS01	-0.192	-0.087
DS02	0.306	0.325
DS04	-1.162	-0.725
DS0c	0.325	-0.514
GP01	-0.129	-0.752
GP02	0.579	1.075
GP0c	-0.17	-0.267
NOD	0.4	0.566
NZO	0.715	-0.066
PWK	0.331	0.361
H37Rv_KO_CtpC	-0.805	-1.04
H37Rv_KO_CtpD	-0.344	-1.754
H37Rv_KO_Rv1272	-0.521	-0.579
H37Rv_KO_SugABC	-0.234	0.474
H37Rv_KO_MbtN	-0.782	-1.456
Trans05	-0.579	-0.594
macrophage_unactivated	-0.129	-0.789
IL1	0.03	-0.03
Rapamycin	-0.427	-0.178
Tcell	-0.342	-0.492
GMCSF	-1.336	-0.343
IFNab	-0.626	-0.239
IFNg	-0.949	0.569
IFNg_GMCSF1	0.094	-0.031
Rv1432_day32	0.739	-0.18
Rv1565c_day32	-0.248	-0.547
secA2_input	0.027	-0.789
delta_Rv3594	0.274	0.759
delta_Rv3717	0.676	0.648
delta_Rv3811	0.877	0.97
delta_Rv0954	0.707	0.416
PonA1	0.375	-0.172
EccD1_KO	1.437	-0.033
EspI_KO	0.779	1.178
PE35_KO	0.723	0.111
PPE68_KO	0.835	0.032
glycerol2	-0.513	-0.545
lignocerate	-0.653	-0.961
oleate	0.069	0.084
phosphatidylcholine	-0.202	-0.545
acetate	-0.861	-0.843
glucAc	-0.887	-1.39
Rv0950ko	-0.431	0.666
Rv1096ko	0.751	0.784
Rv3684ko	0.508	1.12
delta_otsA_trehalose	0.456	0.009