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 Rv2532c/-:

update plot	correlation	link to info on gene
Rv0789c/-	(cc=0.6322)	info on Rv0789c/-
Rv1289/-	(cc=0.6041)	info on Rv1289/-
Rv0964c/-	(cc=0.6008)	info on Rv0964c/-
Rv3195/-	(cc=0.5664)	info on Rv3195/-
Rv2237A/-	(cc=0.5596)	info on Rv2237A/-
Rv1725c/-	(cc=0.5557)	info on Rv1725c/-
Rv0378/-	(cc=0.5433)	info on Rv0378/-
Rv2613c/-	(cc=0.5396)	info on Rv2613c/-
Rv2813/-	(cc=0.5383)	info on Rv2813/-
Rv2402/-	(cc=0.5381)	info on Rv2402/-

Correlation of Rv2532c/- with Rv1289/-

Normalized LFCs for Rv2532c/-:
(description and provenance of datasets)

	Rv2532c/-	Rv1289/-
Fe_supp_jason_reseq	0.077	0.666
low_pH_jason_reseq	-0.142	-0.099
NO_jason_reseq	-0.927	0.659
B6_jason_reseq	0.261	1.077
MHCII_jason_reseq	1.303	0.6
Isoniazid02	0.432	1.077
Rifampicin4	-1.313	0.162
Ethambutol3	-0.103	0.073
Meropenem3	-0.229	0.299
Vancomycin16	0.382	0.334
Rv2680_day32	-0.539	-1.138
H37Rv_KO_MarP	0.648	-0.277
hypoxia_3wks	0.183	-1.013
hypoxia_6wks	0.975	0.0
glycerol	0.208	-0.54
cholesterol	-0.189	0.208
AJ	-0.252	0.024
Bibs02	-0.387	-0.538
Bibs02c	0.799	0.547
BL6	-1.155	-1.07
BL6a	0.281	-0.608
BXD01	-1.316	-0.634
BXD010	-0.35	0.395
BXD011	-0.82	-0.707
BXD03	-1.069	-0.847
BXD04	-0.068	-1.276
BXD05	-0.717	0.24
BXD06	-1.0	-0.374
BXD07	-0.597	-0.652
BXD08	-0.882	-1.233
BXD09	-0.771	-0.962
CAST	0.237	1.485
CCcont	-0.654	-0.213
DS01	-0.082	0.441
DS02	-0.679	0.551
DS04	0.093	1.06
DS0c	-0.011	0.46
GP01	-1.7	0.242
GP02	-1.314	-0.858
GP0c	-1.791	-0.551
NOD	-0.343	1.041
NZO	-0.131	-0.192
PWK	0.546	-0.02
H37Rv_KO_CtpC	-0.008	1.16
H37Rv_KO_CtpD	-1.919	0.911
H37Rv_KO_Rv1272	-1.683	0.718
H37Rv_KO_SugABC	-0.102	0.547
H37Rv_KO_MbtN	0.421	-0.184
Trans05	-0.623	0.857
macrophage_unactivated	-0.354	0.335
IL1	0.81	1.05
Rapamycin	-0.319	0.055
Tcell	-1.196	-0.775
GMCSF	1.428	0.095
IFNab	0.59	0.85
IFNg	0.609	0.048
IFNg_GMCSF1	0.327	0.738
Rv1432_day32	0.232	0.129
Rv1565c_day32	-0.305	0.0
secA2_input	0.0	-0.625
delta_Rv3594	0.089	-0.148
delta_Rv3717	-0.015	-0.209
delta_Rv3811	-1.811	-0.318
delta_Rv0954	-1.61	-0.423
PonA1	0.91	-0.57
EccD1_KO	0.299	2.453
EspI_KO	-0.197	1.118
PE35_KO	0.446	1.313
PPE68_KO	0.829	1.616
glycerol2	1.208	1.801
lignocerate	2.474	2.489
oleate	-0.784	-0.961
phosphatidylcholine	2.22	2.531
acetate	3.405	2.534
glucAc	2.638	2.382
Rv0950ko	-0.588	-0.597
Rv1096ko	-1.043	-1.288
Rv3684ko	0.033	-0.511
delta_otsA_trehalose	-0.965	-0.672