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 Rv2813/-

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

	Rv2532c/-	Rv2813/-
Fe_supp_jason_reseq	0.077	0.747
low_pH_jason_reseq	-0.142	-0.43
NO_jason_reseq	-0.927	-1.735
B6_jason_reseq	0.261	-0.733
MHCII_jason_reseq	1.303	-0.396
Isoniazid02	0.432	0.054
Rifampicin4	-1.313	0.1
Ethambutol3	-0.103	-0.474
Meropenem3	-0.229	-0.724
Vancomycin16	0.382	0.292
Rv2680_day32	-0.539	-0.423
H37Rv_KO_MarP	0.648	0.796
hypoxia_3wks	0.183	-0.159
hypoxia_6wks	0.975	-1.566
glycerol	0.208	1.164
cholesterol	-0.189	0.835
AJ	-0.252	0.299
Bibs02	-0.387	-0.517
Bibs02c	0.799	0.0
BL6	-1.155	0.575
BL6a	0.281	-0.422
BXD01	-1.316	0.552
BXD010	-0.35	-0.072
BXD011	-0.82	0.63
BXD03	-1.069	0.998
BXD04	-0.068	-0.305
BXD05	-0.717	0.269
BXD06	-1.0	0.438
BXD07	-0.597	0.637
BXD08	-0.882	0.139
BXD09	-0.771	0.81
CAST	0.237	0.707
CCcont	-0.654	0.997
DS01	-0.082	0.725
DS02	-0.679	0.714
DS04	0.093	0.474
DS0c	-0.011	0.058
GP01	-1.7	-1.378
GP02	-1.314	-1.078
GP0c	-1.791	-1.263
NOD	-0.343	3.207
NZO	-0.131	0.487
PWK	0.546	0.794
H37Rv_KO_CtpC	-0.008	0.169
H37Rv_KO_CtpD	-1.919	-0.85
H37Rv_KO_Rv1272	-1.683	-0.74
H37Rv_KO_SugABC	-0.102	0.152
H37Rv_KO_MbtN	0.421	-1.242
Trans05	-0.623	-0.074
macrophage_unactivated	-0.354	1.411
IL1	0.81	0.632
Rapamycin	-0.319	1.145
Tcell	-1.196	2.379
GMCSF	1.428	0.985
IFNab	0.59	0.81
IFNg	0.609	2.157
IFNg_GMCSF1	0.327	0.842
Rv1432_day32	0.232	0.321
Rv1565c_day32	-0.305	1.03
secA2_input	0.0	0.2
delta_Rv3594	0.089	1.216
delta_Rv3717	-0.015	0.938
delta_Rv3811	-1.811	-0.269
delta_Rv0954	-1.61	0.207
PonA1	0.91	1.027
EccD1_KO	0.299	1.868
EspI_KO	-0.197	1.218
PE35_KO	0.446	1.657
PPE68_KO	0.829	2.326
glycerol2	1.208	2.058
lignocerate	2.474	2.828
oleate	-0.784	-0.163
phosphatidylcholine	2.22	2.417
acetate	3.405	4.234
glucAc	2.638	3.129
Rv0950ko	-0.588	-0.175
Rv1096ko	-1.043	1.056
Rv3684ko	0.033	-0.806
delta_otsA_trehalose	-0.965	0.15