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 Rv0854/-:

update plot	correlation	link to info on gene
Rv3198A/-	(cc=0.5392)	info on Rv3198A/-
Rv3172c/-	(cc=0.468)	info on Rv3172c/-
Rv2078/-	(cc=0.4602)	info on Rv2078/-
Rv3747/-	(cc=0.4517)	info on Rv3747/-
Rv2127/ansP1	(cc=0.4333)	info on Rv2127/ansP1
Rv3510c/-	(cc=0.4218)	info on Rv3510c/-
Rv0261c/narK3	(cc=0.413)	info on Rv0261c/narK3
Rv2142c/parE2	(cc=0.4099)	info on Rv2142c/parE2
Rv1814/erg3	(cc=0.4061)	info on Rv1814/erg3
Rv0323c/-	(cc=0.3991)	info on Rv0323c/-

Correlation of Rv0854/- with Rv3198A/-

Normalized LFCs for Rv0854/-:
(description and provenance of datasets)

	Rv0854/-	Rv3198A/-
Fe_supp_jason_reseq	-0.148	0.079
low_pH_jason_reseq	-1.129	-0.888
NO_jason_reseq	-1.034	-0.562
B6_jason_reseq	-0.1	-0.557
MHCII_jason_reseq	-0.222	-0.498
Isoniazid02	1.314	0.732
Rifampicin4	-0.872	-0.682
Ethambutol3	0.925	0.316
Meropenem3	-0.44	0.343
Vancomycin16	-0.151	-0.146
Rv2680_day32	0.94	-0.341
H37Rv_KO_MarP	-0.154	-0.056
hypoxia_3wks	0.148	-0.08
hypoxia_6wks	0.134	0.349
glycerol	-1.821	-1.66
cholesterol	-0.795	-0.806
AJ	-0.087	-0.015
Bibs02	0.833	-0.179
Bibs02c	-0.449	0.252
BL6	0.876	-0.255
BL6a	-0.08	0.079
BXD01	0.588	0.208
BXD010	0.098	0.107
BXD011	0.27	0.124
BXD03	-0.313	0.567
BXD04	0.449	0.901
BXD05	0.202	-0.076
BXD06	0.025	0.178
BXD07	0.194	0.253
BXD08	-0.087	0.421
BXD09	-0.204	0.522
CAST	-0.167	-0.167
CCcont	0.136	0.092
DS01	0.625	0.279
DS02	0.299	0.178
DS04	-0.596	-0.03
DS0c	-0.415	0.423
GP01	0.574	-0.331
GP02	-1.037	-2.099
GP0c	-0.154	-0.014
NOD	0.586	-0.205
NZO	-0.468	-0.355
PWK	-0.142	0.247
H37Rv_KO_CtpC	-0.019	-0.265
H37Rv_KO_CtpD	-0.194	-0.187
H37Rv_KO_Rv1272	-0.682	0.468
H37Rv_KO_SugABC	0.585	0.75
H37Rv_KO_MbtN	0.588	0.802
Trans05	0.097	0.442
macrophage_unactivated	0.483	0.432
IL1	-0.294	0.386
Rapamycin	0.135	0.838
Tcell	0.446	-0.235
GMCSF	-0.726	1.215
IFNab	0.121	0.378
IFNg	0.374	0.176
IFNg_GMCSF1	-0.129	0.575
Rv1432_day32	0.645	0.506
Rv1565c_day32	0.521	-0.044
secA2_input	0.551	0.186
delta_Rv3594	0.043	-0.239
delta_Rv3717	0.137	-0.452
delta_Rv3811	-0.929	-1.016
delta_Rv0954	-0.664	-0.382
PonA1	-0.106	-0.184
EccD1_KO	-0.342	0.345
EspI_KO	-0.599	0.103
PE35_KO	0.082	-0.172
PPE68_KO	0.134	-0.49
glycerol2	1.454	0.86
lignocerate	1.069	0.712
oleate	0.59	0.506
phosphatidylcholine	1.225	0.794
acetate	0.367	-0.183
glucAc	0.481	0.8
Rv0950ko	1.004	1.01
Rv1096ko	0.636	0.0
Rv3684ko	-0.665	0.131
delta_otsA_trehalose	0.135	-0.097