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 Rv0674/-:

update plot	correlation	link to info on gene
Rv1453/-	(cc=0.5891)	info on Rv1453/-
Rv0901/-	(cc=0.5708)	info on Rv0901/-
Rv0218/-	(cc=0.5667)	info on Rv0218/-
Rv3637/-	(cc=0.5633)	info on Rv3637/-
Rv3401/-	(cc=0.563)	info on Rv3401/-
Rv1181/pks4	(cc=0.5386)	info on Rv1181/pks4
Rv0233/nrdB	(cc=0.5312)	info on Rv0233/nrdB
Rv2915c/-	(cc=0.5309)	info on Rv2915c/-
Rv2867c/-	(cc=0.5286)	info on Rv2867c/-
Rv2974c/-	(cc=0.5188)	info on Rv2974c/-

Correlation of Rv0674/- with Rv1453/-

Normalized LFCs for Rv0674/-:
(description and provenance of datasets)

	Rv0674/-	Rv1453/-
Fe_supp_jason_reseq	-0.863	0.72
low_pH_jason_reseq	-0.915	0.659
NO_jason_reseq	0.194	-0.672
B6_jason_reseq	1.023	2.065
MHCII_jason_reseq	1.392	1.373
Isoniazid02	-0.108	1.302
Rifampicin4	0.712	0.219
Ethambutol3	1.031	0.876
Meropenem3	0.642	0.7
Vancomycin16	0.698	0.114
Rv2680_day32	0.0	0.241
H37Rv_KO_MarP	-0.145	0.793
hypoxia_3wks	0.459	0.905
hypoxia_6wks	-1.625	1.054
glycerol	0.878	-0.025
cholesterol	0.694	-0.156
AJ	0.077	0.35
Bibs02	1.025	0.738
Bibs02c	-0.302	0.526
BL6	-1.479	-1.143
BL6a	-1.964	-0.062
BXD01	-1.54	-0.497
BXD010	-0.459	-0.054
BXD011	-0.88	-0.022
BXD03	-0.094	-0.914
BXD04	-1.339	-0.5
BXD05	-1.457	-0.657
BXD06	-0.543	-0.426
BXD07	-1.373	-0.491
BXD08	-1.105	-0.219
BXD09	-0.719	-0.257
CAST	-0.938	-0.048
CCcont	-1.481	-1.652
DS01	0.974	0.818
DS02	0.635	0.756
DS04	1.27	1.053
DS0c	0.943	1.053
GP01	-1.167	-0.652
GP02	-0.984	-1.909
GP0c	-1.537	-1.531
NOD	-0.6	0.251
NZO	0.192	0.152
PWK	-0.136	0.436
H37Rv_KO_CtpC	-1.92	-1.253
H37Rv_KO_CtpD	-1.497	0.017
H37Rv_KO_Rv1272	-1.172	-0.603
H37Rv_KO_SugABC	-1.073	-0.68
H37Rv_KO_MbtN	-1.116	-0.386
Trans05	-1.296	-0.9
macrophage_unactivated	-2.058	-0.78
IL1	-1.361	-0.528
Rapamycin	0.0	-0.344
Tcell	-1.906	-0.261
GMCSF	-2.308	-0.232
IFNab	-1.575	-0.538
IFNg	-0.497	-0.794
IFNg_GMCSF1	-1.637	-0.119
Rv1432_day32	0.0	0.072
Rv1565c_day32	-0.305	0.264
secA2_input	-0.258	0.41
delta_Rv3594	-2.385	-0.118
delta_Rv3717	-2.796	-1.099
delta_Rv3811	-0.947	0.079
delta_Rv0954	-1.828	-0.846
PonA1	-0.931	-0.374
EccD1_KO	-0.898	0.503
EspI_KO	0.14	-0.151
PE35_KO	-0.796	0.277
PPE68_KO	-1.491	0.336
glycerol2	-1.188	0.338
lignocerate	-1.033	0.073
oleate	-1.202	0.525
phosphatidylcholine	-0.994	0.43
acetate	-1.41	-0.136
glucAc	-0.877	-0.174
Rv0950ko	-1.631	-0.32
Rv1096ko	0.133	-0.787
Rv3684ko	-0.982	-0.331
delta_otsA_trehalose	0.564	1.851