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 Rv0789c/-:

update plot	correlation	link to info on gene
Rv1289/-	(cc=0.6574)	info on Rv1289/-
Rv1489A/-	(cc=0.6491)	info on Rv1489A/-
Rv2802c/-	(cc=0.6346)	info on Rv2802c/-
Rv2532c/-	(cc=0.6322)	info on Rv2532c/-
Rv2019/-	(cc=0.6029)	info on Rv2019/-
Rv0964c/-	(cc=0.5948)	info on Rv0964c/-
Rv3195/-	(cc=0.5915)	info on Rv3195/-
Rv2237/-	(cc=0.5911)	info on Rv2237/-
Rv1725c/-	(cc=0.5887)	info on Rv1725c/-
Rv1038c/esxJ	(cc=0.5839)	info on Rv1038c/esxJ

Correlation of Rv0789c/- with Rv2802c/-

Normalized LFCs for Rv0789c/-:
(description and provenance of datasets)

	Rv0789c/-	Rv2802c/-
Fe_supp_jason_reseq	-0.073	0.103
low_pH_jason_reseq	0.284	-0.356
NO_jason_reseq	-1.362	0.197
B6_jason_reseq	-0.395	-0.83
MHCII_jason_reseq	0.449	0.351
Isoniazid02	-0.073	0.389
Rifampicin4	-0.815	1.332
Ethambutol3	-0.519	0.901
Meropenem3	-0.272	0.944
Vancomycin16	-0.167	0.658
Rv2680_day32	0.222	0.848
H37Rv_KO_MarP	-0.714	-0.313
hypoxia_3wks	-1.328	-0.881
hypoxia_6wks	0.23	-0.274
glycerol	-0.873	1.284
cholesterol	-0.682	1.044
AJ	0.02	0.548
Bibs02	-0.699	0.791
Bibs02c	0.018	-0.073
BL6	-1.162	0.275
BL6a	-0.405	-0.773
BXD01	-0.307	-0.036
BXD010	0.104	-0.118
BXD011	-1.379	-0.629
BXD03	-0.768	-0.217
BXD04	-0.667	-0.377
BXD05	-0.707	0.948
BXD06	-1.847	-0.153
BXD07	-1.23	-0.314
BXD08	-0.68	-0.358
BXD09	-0.47	-0.009
CAST	-0.332	0.092
CCcont	-0.383	0.564
DS01	-0.021	0.881
DS02	-0.151	0.758
DS04	1.314	1.345
DS0c	0.141	-0.437
GP01	-0.133	0.606
GP02	-1.1	0.95
GP0c	0.0	0.603
NOD	-0.303	-0.854
NZO	1.224	-0.169
PWK	-0.246	0.091
H37Rv_KO_CtpC	0.412	-0.438
H37Rv_KO_CtpD	-1.97	-0.035
H37Rv_KO_Rv1272	0.069	-0.947
H37Rv_KO_SugABC	0.403	0.15
H37Rv_KO_MbtN	-1.769	-0.85
Trans05	1.333	0.792
macrophage_unactivated	0.776	0.96
IL1	2.658	1.264
Rapamycin	-0.433	0.104
Tcell	0.71	0.055
GMCSF	-1.125	-0.65
IFNab	0.744	0.051
IFNg	-0.091	0.313
IFNg_GMCSF1	1.279	-0.55
Rv1432_day32	1.095	-0.398
Rv1565c_day32	0.344	-1.69
secA2_input	-0.434	0.348
delta_Rv3594	-0.889	-0.278
delta_Rv3717	0.228	0.448
delta_Rv3811	-0.772	0.174
delta_Rv0954	-0.974	0.265
PonA1	-0.791	1.03
EccD1_KO	1.22	1.197
EspI_KO	0.499	0.448
PE35_KO	1.164	0.102
PPE68_KO	0.803	1.075
glycerol2	3.129	2.393
lignocerate	3.78	3.377
oleate	0.196	-0.216
phosphatidylcholine	2.994	2.644
acetate	3.712	3.536
glucAc	3.388	2.965
Rv0950ko	0.223	0.389
Rv1096ko	1.252	0.455
Rv3684ko	0.658	1.287
delta_otsA_trehalose	-1.059	0.61