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 Rv1973/-:

update plot	correlation	link to info on gene
Rv3038c/-	(cc=0.6239)	info on Rv3038c/-
Rv1276c/-	(cc=0.601)	info on Rv1276c/-
Rv0737/-	(cc=0.5896)	info on Rv0737/-
Rv2014/-	(cc=0.5892)	info on Rv2014/-
Rv0228/-	(cc=0.585)	info on Rv0228/-
Rv0449c/-	(cc=0.5605)	info on Rv0449c/-
Rv0569/-	(cc=0.5544)	info on Rv0569/-
Rv0421c/-	(cc=0.5515)	info on Rv0421c/-
Rv3607c/folB	(cc=0.5499)	info on Rv3607c/folB
Rv2669/-	(cc=0.5487)	info on Rv2669/-

Correlation of Rv1973/- with Rv0449c/-

Normalized LFCs for Rv1973/-:
(description and provenance of datasets)

	Rv1973/-	Rv0449c/-
Fe_supp_jason_reseq	-0.881	-0.355
low_pH_jason_reseq	1.139	0.243
NO_jason_reseq	1.339	0.092
B6_jason_reseq	0.457	-0.243
MHCII_jason_reseq	0.984	0.286
Isoniazid02	0.33	0.01
Rifampicin4	0.712	0.2
Ethambutol3	0.061	0.106
Meropenem3	-0.217	0.882
Vancomycin16	0.846	0.037
Rv2680_day32	-0.459	0.392
H37Rv_KO_MarP	0.048	0.268
hypoxia_3wks	0.307	-0.14
hypoxia_6wks	-0.084	-0.478
glycerol	0.638	0.031
cholesterol	-0.659	-0.441
AJ	0.417	-0.313
Bibs02	0.404	-0.493
Bibs02c	-1.55	-0.017
BL6	-1.047	-0.355
BL6a	-1.296	-0.319
BXD01	-1.28	-1.063
BXD010	-1.968	-0.828
BXD011	-2.528	-0.3
BXD03	-2.961	-0.686
BXD04	-2.129	-0.524
BXD05	-2.528	-0.532
BXD06	-2.26	-0.711
BXD07	-2.384	-1.096
BXD08	-0.474	-0.602
BXD09	-2.092	-1.195
CAST	0.038	-0.36
CCcont	-2.059	-1.146
DS01	0.879	0.115
DS02	-0.775	0.098
DS04	-1.095	0.03
DS0c	-0.382	0.214
GP01	0.942	0.582
GP02	1.323	0.674
GP0c	1.077	0.11
NOD	0.652	-0.096
NZO	0.63	0.559
PWK	0.369	0.016
H37Rv_KO_CtpC	-1.15	-0.486
H37Rv_KO_CtpD	-1.694	-0.48
H37Rv_KO_Rv1272	-2.388	-0.172
H37Rv_KO_SugABC	-2.545	-0.497
H37Rv_KO_MbtN	0.929	0.194
Trans05	-0.827	-0.078
macrophage_unactivated	-0.082	-0.022
IL1	-2.317	0.136
Rapamycin	-3.861	-0.166
Tcell	-0.74	-0.906
GMCSF	-2.184	0.238
IFNab	-0.877	0.139
IFNg	-1.424	0.468
IFNg_GMCSF1	-0.616	-0.085
Rv1432_day32	-0.604	-0.291
Rv1565c_day32	-1.071	0.199
secA2_input	1.531	1.011
delta_Rv3594	0.213	0.33
delta_Rv3717	0.194	0.579
delta_Rv3811	2.074	0.278
delta_Rv0954	1.729	0.587
PonA1	0.605	0.748
EccD1_KO	1.411	-0.076
EspI_KO	0.268	0.396
PE35_KO	-1.158	0.184
PPE68_KO	-0.227	-0.112
glycerol2	-0.374	0.0
lignocerate	-0.861	-0.431
oleate	0.642	0.347
phosphatidylcholine	-0.405	-0.296
acetate	-1.011	-0.474
glucAc	-1.015	-0.823
Rv0950ko	-0.157	0.624
Rv1096ko	0.226	0.374
Rv3684ko	-1.074	0.678
delta_otsA_trehalose	-0.11	0.048