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 Rv2819c/-:

update plot	correlation	link to info on gene
Rv2648/-	(cc=0.5434)	info on Rv2648/-
Rv2267c/-	(cc=0.5401)	info on Rv2267c/-
Rv2512c/-	(cc=0.5268)	info on Rv2512c/-
Rv1948c/-	(cc=0.5251)	info on Rv1948c/-
Rv1199c/-	(cc=0.5245)	info on Rv1199c/-
Rv2276/cyp121	(cc=0.5088)	info on Rv2276/cyp121
Rv1498c/-	(cc=0.4979)	info on Rv1498c/-
Rv3784/-	(cc=0.4932)	info on Rv3784/-
Rv3490/otsA	(cc=0.4922)	info on Rv3490/otsA
Rv2809/-	(cc=0.4922)	info on Rv2809/-

Correlation of Rv2819c/- with Rv2648/-

Normalized LFCs for Rv2819c/-:
(description and provenance of datasets)

	Rv2819c/-	Rv2648/-
Fe_supp_jason_reseq	0.257	-0.197
low_pH_jason_reseq	-0.032	0.607
NO_jason_reseq	0.05	0.213
B6_jason_reseq	0.083	-0.291
MHCII_jason_reseq	0.392	-0.668
Isoniazid02	-0.18	0.09
Rifampicin4	0.406	0.831
Ethambutol3	1.216	1.212
Meropenem3	-0.2	-0.32
Vancomycin16	0.255	0.0
Rv2680_day32	0.526	0.0
H37Rv_KO_MarP	-0.255	-0.381
hypoxia_3wks	-0.506	0.71
hypoxia_6wks	-0.196	-0.04
glycerol	0.149	-0.478
cholesterol	0.49	0.036
AJ	1.397	1.686
Bibs02	0.449	-0.102
Bibs02c	1.205	1.27
BL6	0.652	-0.063
BL6a	1.124	0.641
BXD01	0.761	0.273
BXD010	0.543	0.491
BXD011	0.591	0.209
BXD03	0.755	0.413
BXD04	0.498	0.213
BXD05	0.611	0.829
BXD06	0.757	0.47
BXD07	0.642	0.29
BXD08	0.294	0.246
BXD09	0.652	0.248
CAST	0.48	0.968
CCcont	0.938	-0.091
DS01	1.025	0.578
DS02	0.312	0.498
DS04	-0.122	0.326
DS0c	1.152	1.023
GP01	0.958	1.148
GP02	1.04	1.606
GP0c	0.714	0.498
NOD	0.858	0.967
NZO	0.653	1.4
PWK	2.593	1.483
H37Rv_KO_CtpC	0.992	1.152
H37Rv_KO_CtpD	-0.144	0.378
H37Rv_KO_Rv1272	0.774	0.616
H37Rv_KO_SugABC	0.194	0.601
H37Rv_KO_MbtN	1.627	1.198
Trans05	1.227	0.54
macrophage_unactivated	-0.205	-0.489
IL1	-0.193	-1.278
Rapamycin	0.374	-0.936
Tcell	0.202	-1.655
GMCSF	0.164	-1.505
IFNab	0.0	-0.723
IFNg	-0.219	-1.045
IFNg_GMCSF1	0.148	-0.38
Rv1432_day32	0.87	1.459
Rv1565c_day32	-0.935	-0.875
secA2_input	-1.116	-0.204
delta_Rv3594	0.0	0.145
delta_Rv3717	-0.292	-0.493
delta_Rv3811	0.085	-0.425
delta_Rv0954	-1.056	0.0
PonA1	-0.464	-0.574
EccD1_KO	0.378	0.092
EspI_KO	0.516	0.938
PE35_KO	2.106	0.828
PPE68_KO	1.769	0.218
glycerol2	1.002	0.168
lignocerate	1.189	-0.222
oleate	0.438	-0.116
phosphatidylcholine	1.028	-0.041
acetate	1.107	0.716
glucAc	0.709	1.706
Rv0950ko	-1.013	0.127
Rv1096ko	-0.805	-0.066
Rv3684ko	-1.336	-0.364
delta_otsA_trehalose	-0.851	0.58