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 Rv0831c/-:

update plot	correlation	link to info on gene
Rv2430c/PPE41	(cc=0.6197)	info on Rv2430c/PPE41
Rv3156/nuoL	(cc=0.5916)	info on Rv3156/nuoL
Rv3397c/phyA	(cc=0.5876)	info on Rv3397c/phyA
Rv0932c/pstS2	(cc=0.5785)	info on Rv0932c/pstS2
Rv1500/-	(cc=0.5726)	info on Rv1500/-
Rv2350c/plcB	(cc=0.5718)	info on Rv2350c/plcB
Rv1861/-	(cc=0.5606)	info on Rv1861/-
Rv1488/-	(cc=0.5562)	info on Rv1488/-
Rv0231/fadE4	(cc=0.5516)	info on Rv0231/fadE4
Rv0403c/mmpS1	(cc=0.5515)	info on Rv0403c/mmpS1

Correlation of Rv0831c/- with Rv1861/-

Normalized LFCs for Rv0831c/-:
(description and provenance of datasets)

	Rv0831c/-	Rv1861/-
Fe_supp_jason_reseq	-0.095	-0.117
low_pH_jason_reseq	-0.795	-1.655
NO_jason_reseq	-0.181	0.428
B6_jason_reseq	-0.576	-1.122
MHCII_jason_reseq	-0.507	-0.956
Isoniazid02	-2.738	-0.723
Rifampicin4	-0.284	-0.284
Ethambutol3	-0.525	0.428
Meropenem3	-0.074	1.029
Vancomycin16	-0.141	-0.342
Rv2680_day32	-0.171	0.683
H37Rv_KO_MarP	0.205	-0.428
hypoxia_3wks	0.447	0.63
hypoxia_6wks	0.875	1.165
glycerol	-1.346	-2.422
cholesterol	0.227	-0.936
AJ	-0.094	0.155
Bibs02	0.817	0.057
Bibs02c	-0.474	-1.555
BL6	0.909	-0.072
BL6a	0.676	-0.35
BXD01	0.486	0.581
BXD010	0.649	0.628
BXD011	1.237	0.659
BXD03	1.058	0.255
BXD04	1.061	0.521
BXD05	0.354	-0.009
BXD06	0.441	0.903
BXD07	0.482	0.9
BXD08	0.487	0.989
BXD09	0.943	0.753
CAST	0.991	0.31
CCcont	0.444	-0.188
DS01	0.44	0.445
DS02	0.67	-0.199
DS04	0.378	0.604
DS0c	0.105	0.696
GP01	0.0	0.859
GP02	1.084	1.048
GP0c	0.516	0.809
NOD	1.429	0.861
NZO	0.429	0.334
PWK	0.703	0.527
H37Rv_KO_CtpC	0.401	1.449
H37Rv_KO_CtpD	0.638	1.112
H37Rv_KO_Rv1272	1.234	0.338
H37Rv_KO_SugABC	1.089	1.671
H37Rv_KO_MbtN	0.23	0.74
Trans05	1.402	0.734
macrophage_unactivated	-0.297	0.12
IL1	-0.193	-0.617
Rapamycin	-0.779	0.0
Tcell	-0.046	-0.192
GMCSF	-0.048	-0.396
IFNab	-0.405	-0.453
IFNg	-0.037	-0.363
IFNg_GMCSF1	-0.192	-0.167
Rv1432_day32	0.206	0.386
Rv1565c_day32	-0.161	0.297
secA2_input	-0.014	-0.194
delta_Rv3594	-0.121	-0.11
delta_Rv3717	-0.578	-0.41
delta_Rv3811	0.23	-0.556
delta_Rv0954	0.11	0.417
PonA1	0.179	-0.129
EccD1_KO	0.441	-0.046
EspI_KO	0.813	0.22
PE35_KO	-0.414	-0.064
PPE68_KO	-0.214	0.352
glycerol2	0.629	-0.149
lignocerate	0.727	-0.505
oleate	0.432	0.411
phosphatidylcholine	0.162	-0.101
acetate	0.05	-0.427
glucAc	0.037	-1.002
Rv0950ko	0.19	1.061
Rv1096ko	0.166	-0.196
Rv3684ko	0.219	-1.055
delta_otsA_trehalose	0.456	0.247