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 Rv2871/vapB43:

update plot	correlation	link to info on gene
Rv2758c/vapB21	(cc=0.5356)	info on Rv2758c/vapB21
Rv0154c/fadE2	(cc=0.5191)	info on Rv0154c/fadE2
Rv3694c/-	(cc=0.5099)	info on Rv3694c/-
Rv2497c/bkdA	(cc=0.4892)	info on Rv2497c/bkdA
Rv3342/-	(cc=0.4849)	info on Rv3342/-
Rv2038c/-	(cc=0.4663)	info on Rv2038c/-
Rv3210c/-	(cc=0.4636)	info on Rv3210c/-
Rv3314c/deoA	(cc=0.4622)	info on Rv3314c/deoA
Rv0093c/-	(cc=0.4575)	info on Rv0093c/-
Rv0260c/-	(cc=0.4572)	info on Rv0260c/-

Correlation of Rv2871/vapB43 with Rv2497c/bkdA

Normalized LFCs for Rv2871/vapB43:
(description and provenance of datasets)

	Rv2871/vapB43	Rv2497c/bkdA
Fe_supp_jason_reseq	-0.188	-0.297
low_pH_jason_reseq	-0.571	0.244
NO_jason_reseq	0.378	0.36
B6_jason_reseq	-1.287	-1.575
MHCII_jason_reseq	-0.535	0.011
Isoniazid02	-0.438	-1.077
Rifampicin4	0.577	0.263
Ethambutol3	0.387	-1.058
Meropenem3	0.0	-0.461
Vancomycin16	0.215	-1.035
Rv2680_day32	0.554	-0.473
H37Rv_KO_MarP	1.098	-0.144
hypoxia_3wks	-1.013	0.634
hypoxia_6wks	-0.965	-0.578
glycerol	-1.788	-1.842
cholesterol	0.054	0.311
AJ	1.356	-0.062
Bibs02	-1.325	0.432
Bibs02c	-1.091	0.426
BL6	0.952	0.255
BL6a	1.158	0.666
BXD01	1.412	0.147
BXD010	0.047	0.491
BXD011	0.947	0.476
BXD03	0.098	-0.389
BXD04	0.584	-0.334
BXD05	0.603	0.528
BXD06	1.196	0.342
BXD07	0.479	0.641
BXD08	0.75	0.118
BXD09	0.881	0.732
CAST	-0.37	-1.006
CCcont	2.347	0.444
DS01	-0.83	0.238
DS02	-2.339	-0.375
DS04	0.207	0.125
DS0c	0.809	0.644
GP01	0.466	0.682
GP02	-0.603	0.178
GP0c	0.223	0.192
NOD	-0.91	-0.218
NZO	-0.41	0.103
PWK	1.309	0.503
H37Rv_KO_CtpC	1.905	1.407
H37Rv_KO_CtpD	-0.204	0.299
H37Rv_KO_Rv1272	0.995	1.469
H37Rv_KO_SugABC	2.157	1.395
H37Rv_KO_MbtN	2.291	0.21
Trans05	0.0	0.92
macrophage_unactivated	1.689	1.111
IL1	0.795	0.676
Rapamycin	1.826	0.246
Tcell	0.456	0.668
GMCSF	1.135	0.784
IFNab	0.0	0.828
IFNg	1.938	1.053
IFNg_GMCSF1	-0.189	0.49
Rv1432_day32	0.763	-0.117
Rv1565c_day32	0.684	-0.542
secA2_input	0.286	0.509
delta_Rv3594	-1.042	-0.24
delta_Rv3717	-0.327	0.305
delta_Rv3811	-1.054	-0.214
delta_Rv0954	-1.105	-0.669
PonA1	-1.626	-0.777
EccD1_KO	-0.069	-0.51
EspI_KO	1.289	-1.072
PE35_KO	-1.645	0.184
PPE68_KO	-0.656	0.422
glycerol2	1.361	0.581
lignocerate	1.32	1.132
oleate	0.746	1.466
phosphatidylcholine	1.188	0.753
acetate	2.08	0.775
glucAc	1.459	0.0
Rv0950ko	-0.89	-0.172
Rv1096ko	-0.247	0.066
Rv3684ko	1.225	0.0
delta_otsA_trehalose	0.073	-0.184