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 Rv2679/echA15:

update plot	correlation	link to info on gene
Rv0342/iniA	(cc=0.6294)	info on Rv0342/iniA
Rv3406/-	(cc=0.5782)	info on Rv3406/-
Rv2577/-	(cc=0.5777)	info on Rv2577/-
Rv3077/-	(cc=0.559)	info on Rv3077/-
Rv0968/-	(cc=0.5541)	info on Rv0968/-
Rv3323c/moaX	(cc=0.5225)	info on Rv3323c/moaX
Rv1726/-	(cc=0.5212)	info on Rv1726/-
Rv3329/-	(cc=0.5175)	info on Rv3329/-
Rv0160c/PE4	(cc=0.5145)	info on Rv0160c/PE4
Rv3435c/-	(cc=0.5112)	info on Rv3435c/-

Correlation of Rv2679/echA15 with Rv3406/-

Normalized LFCs for Rv2679/echA15:
(description and provenance of datasets)

	Rv2679/echA15	Rv3406/-
Fe_supp_jason_reseq	-0.857	-0.343
low_pH_jason_reseq	-1.198	-0.477
NO_jason_reseq	1.142	-0.347
B6_jason_reseq	-0.225	-0.298
MHCII_jason_reseq	0.652	0.298
Isoniazid02	-2.239	-1.986
Rifampicin4	0.214	0.368
Ethambutol3	-1.268	-1.893
Meropenem3	-1.438	-0.167
Vancomycin16	-0.873	-0.748
Rv2680_day32	0.16	-0.062
H37Rv_KO_MarP	0.085	0.524
hypoxia_3wks	-0.319	-0.032
hypoxia_6wks	-0.66	-0.386
glycerol	0.48	0.023
cholesterol	0.102	-0.246
AJ	0.388	0.531
Bibs02	-0.71	0.201
Bibs02c	0.1	-0.662
BL6	0.269	1.034
BL6a	-0.696	0.145
BXD01	0.183	-0.008
BXD010	-0.586	0.811
BXD011	0.013	0.153
BXD03	-0.669	-0.158
BXD04	-0.318	0.425
BXD05	-0.124	0.565
BXD06	-0.331	0.274
BXD07	0.032	0.336
BXD08	0.514	0.023
BXD09	-0.61	0.494
CAST	-0.445	0.46
CCcont	0.019	0.043
DS01	-0.12	0.31
DS02	-0.347	-0.05
DS04	0.201	0.077
DS0c	-0.925	-0.239
GP01	0.265	0.288
GP02	1.004	1.221
GP0c	0.0	-0.528
NOD	0.41	0.809
NZO	0.202	-0.194
PWK	0.32	0.512
H37Rv_KO_CtpC	0.118	-0.067
H37Rv_KO_CtpD	1.037	0.795
H37Rv_KO_Rv1272	-0.179	-0.911
H37Rv_KO_SugABC	-0.594	0.155
H37Rv_KO_MbtN	0.237	-0.211
Trans05	-0.359	-0.565
macrophage_unactivated	-0.994	-0.331
IL1	0.329	0.039
Rapamycin	0.377	-0.04
Tcell	-0.267	0.124
GMCSF	0.692	0.195
IFNab	0.054	-0.218
IFNg	-0.168	0.449
IFNg_GMCSF1	0.258	0.251
Rv1432_day32	0.096	0.252
Rv1565c_day32	-0.321	-0.24
secA2_input	0.603	-0.016
delta_Rv3594	-0.387	-0.465
delta_Rv3717	0.248	-0.262
delta_Rv3811	-1.472	-0.149
delta_Rv0954	-0.076	0.419
PonA1	-0.062	0.259
EccD1_KO	-0.454	0.691
EspI_KO	0.157	0.046
PE35_KO	-0.362	-0.047
PPE68_KO	0.118	-0.211
glycerol2	0.387	0.553
lignocerate	0.716	0.225
oleate	0.795	0.527
phosphatidylcholine	0.794	0.5
acetate	0.073	0.219
glucAc	0.036	0.06
Rv0950ko	0.627	0.573
Rv1096ko	0.609	0.694
Rv3684ko	0.544	0.151
delta_otsA_trehalose	1.186	1.329