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 Rv3780/-:

update plot	correlation	link to info on gene
Rv2281/pitB	(cc=0.6463)	info on Rv2281/pitB
Rv0590A/-	(cc=0.6153)	info on Rv0590A/-
Rv2151c/ftsQ	(cc=0.5777)	info on Rv2151c/ftsQ
Rv2237/-	(cc=0.5597)	info on Rv2237/-
Rv1862/adhA	(cc=0.5512)	info on Rv1862/adhA
Rv2756c/hsdM	(cc=0.5511)	info on Rv2756c/hsdM
Rv1987/-	(cc=0.5439)	info on Rv1987/-
Rv2078/-	(cc=0.5428)	info on Rv2078/-
Rv2119/-	(cc=0.5313)	info on Rv2119/-
Rv1725c/-	(cc=0.5195)	info on Rv1725c/-

Correlation of Rv3780/- with Rv2281/pitB

Normalized LFCs for Rv3780/-:
(description and provenance of datasets)

	Rv3780/-	Rv2281/pitB
Fe_supp_jason_reseq	0.0	0.223
low_pH_jason_reseq	0.0	-0.343
NO_jason_reseq	0.0	0.215
B6_jason_reseq	0.0	0.28
MHCII_jason_reseq	0.0	-0.784
Isoniazid02	-0.383	-1.67
Rifampicin4	-0.341	0.458
Ethambutol3	-0.153	0.555
Meropenem3	-0.315	-0.641
Vancomycin16	-0.698	-0.584
Rv2680_day32	0.0	0.336
H37Rv_KO_MarP	1.936	-0.325
hypoxia_3wks	-1.049	-0.191
hypoxia_6wks	-0.549	-0.1
glycerol	-0.202	0.171
cholesterol	0.659	0.215
AJ	-0.232	0.482
Bibs02	-0.183	0.155
Bibs02c	0.527	0.0
BL6	0.569	0.69
BL6a	0.346	0.469
BXD01	0.0	0.193
BXD010	0.0	0.456
BXD011	0.727	0.591
BXD03	-0.135	-0.234
BXD04	0.0	-0.139
BXD05	0.0	0.28
BXD06	0.0	0.541
BXD07	0.0	0.643
BXD08	0.521	0.952
BXD09	0.128	1.115
CAST	-0.23	0.27
CCcont	1.934	0.588
DS01	-0.236	0.69
DS02	-0.217	0.605
DS04	0.0	-0.419
DS0c	1.354	-0.614
GP01	0.0	0.147
GP02	-0.083	1.022
GP0c	0.0	-0.429
NOD	-0.225	0.298
NZO	-0.199	0.834
PWK	0.342	0.068
H37Rv_KO_CtpC	1.759	0.165
H37Rv_KO_CtpD	0.221	0.499
H37Rv_KO_Rv1272	0.553	0.097
H37Rv_KO_SugABC	0.0	0.673
H37Rv_KO_MbtN	0.18	-0.316
Trans05	0.0	0.515
macrophage_unactivated	0.83	0.622
IL1	0.0	0.35
Rapamycin	0.0	0.052
Tcell	0.0	-0.482
GMCSF	0.0	-0.29
IFNab	0.0	0.051
IFNg	0.369	0.567
IFNg_GMCSF1	0.0	-0.465
Rv1432_day32	0.052	0.231
Rv1565c_day32	0.0	-0.106
secA2_input	-0.568	0.277
delta_Rv3594	0.281	0.34
delta_Rv3717	0.232	-0.468
delta_Rv3811	-0.315	-1.184
delta_Rv0954	-0.981	-0.028
PonA1	-0.53	0.299
EccD1_KO	-0.921	-0.164
EspI_KO	-0.799	-0.682
PE35_KO	-0.254	0.14
PPE68_KO	1.59	0.304
glycerol2	1.684	1.481
lignocerate	2.097	2.191
oleate	0.0	-0.084
phosphatidylcholine	1.499	1.867
acetate	3.004	2.364
glucAc	2.859	2.339
Rv0950ko	0.621	0.066
Rv1096ko	0.323	0.383
Rv3684ko	-0.377	-0.789
delta_otsA_trehalose	-3.775	-2.033