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 Rv2565/-:

update plot	correlation	link to info on gene
Rv0689c/-	(cc=0.4684)	info on Rv0689c/-
Rv0487/-	(cc=0.445)	info on Rv0487/-
Rv2141c/-	(cc=0.4338)	info on Rv2141c/-
Rv1625c/cya	(cc=0.4205)	info on Rv1625c/cya
Rv3131/-	(cc=0.4177)	info on Rv3131/-
Rv0863/-	(cc=0.3979)	info on Rv0863/-
Rv1447c/zwf2	(cc=0.391)	info on Rv1447c/zwf2
Rv2453c/mobA	(cc=0.3891)	info on Rv2453c/mobA
Rv2739c/-	(cc=0.3884)	info on Rv2739c/-
Rv0044c/-	(cc=0.3593)	info on Rv0044c/-

Correlation of Rv2565/- with Rv0689c/-

Normalized LFCs for Rv2565/-:
(description and provenance of datasets)

	Rv2565/-	Rv0689c/-
Fe_supp_jason_reseq	-1.105	-1.596
low_pH_jason_reseq	0.269	-0.097
NO_jason_reseq	-2.644	-0.84
B6_jason_reseq	-0.453	-1.453
MHCII_jason_reseq	-0.55	-0.865
Isoniazid02	0.045	0.736
Rifampicin4	0.406	0.179
Ethambutol3	0.019	0.781
Meropenem3	0.512	0.454
Vancomycin16	0.061	0.523
Rv2680_day32	-1.34	-0.741
H37Rv_KO_MarP	0.708	0.253
hypoxia_3wks	-0.61	-0.997
hypoxia_6wks	-0.591	-0.558
glycerol	-0.834	-0.835
cholesterol	-0.197	0.039
AJ	-0.432	0.755
Bibs02	0.266	1.244
Bibs02c	0.841	1.216
BL6	0.874	0.94
BL6a	0.326	1.375
BXD01	-0.811	-0.197
BXD010	-0.557	0.754
BXD011	-0.499	0.205
BXD03	-0.475	0.536
BXD04	-0.485	0.485
BXD05	-0.91	0.079
BXD06	-0.443	-0.073
BXD07	-0.27	0.599
BXD08	-0.441	0.214
BXD09	-0.912	0.98
CAST	0.848	1.81
CCcont	-0.57	0.571
DS01	-0.693	1.381
DS02	-0.898	0.542
DS04	0.082	-1.183
DS0c	0.369	0.014
GP01	-0.08	0.865
GP02	-0.684	-0.538
GP0c	-0.028	0.429
NOD	-0.597	0.322
NZO	-0.423	-0.53
PWK	1.13	0.53
H37Rv_KO_CtpC	0.557	1.064
H37Rv_KO_CtpD	0.848	1.752
H37Rv_KO_Rv1272	-0.553	0.622
H37Rv_KO_SugABC	-1.18	-1.061
H37Rv_KO_MbtN	0.111	-0.523
Trans05	-0.178	-0.515
macrophage_unactivated	-0.028	0.464
IL1	0.184	0.172
Rapamycin	-0.316	-0.347
Tcell	0.283	1.398
GMCSF	0.095	1.373
IFNab	-0.49	0.695
IFNg	-0.024	-0.147
IFNg_GMCSF1	-0.145	-1.128
Rv1432_day32	-1.949	-0.771
Rv1565c_day32	-0.655	-0.411
secA2_input	-0.249	0.792
delta_Rv3594	-0.15	0.702
delta_Rv3717	-0.096	1.138
delta_Rv3811	-0.51	0.204
delta_Rv0954	-0.643	0.366
PonA1	-0.366	-0.495
EccD1_KO	0.086	0.556
EspI_KO	-0.308	0.57
PE35_KO	-0.193	-0.356
PPE68_KO	0.282	0.541
glycerol2	-0.305	-0.619
lignocerate	-0.23	0.306
oleate	0.576	-0.732
phosphatidylcholine	-0.368	0.234
acetate	0.278	0.198
glucAc	-0.403	0.454
Rv0950ko	-0.38	-0.214
Rv1096ko	-0.072	-0.048
Rv3684ko	-0.367	-1.742
delta_otsA_trehalose	0.187	2.026