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 Rv0762c/-:

update plot	correlation	link to info on gene
Rv3425/PPE57	(cc=0.5104)	info on Rv3425/PPE57
Rv0076c/-	(cc=0.4763)	info on Rv0076c/-
Rv1088/PE9	(cc=0.4661)	info on Rv1088/PE9
Rv2067c/-	(cc=0.4655)	info on Rv2067c/-
Rv3888c/-	(cc=0.4577)	info on Rv3888c/-
Rv3143/-	(cc=0.4565)	info on Rv3143/-
Rv2430c/PPE41	(cc=0.4537)	info on Rv2430c/PPE41
Rv1051c/-	(cc=0.4519)	info on Rv1051c/-
Rv3429/PPE59	(cc=0.4518)	info on Rv3429/PPE59
Rv1751/-	(cc=0.4422)	info on Rv1751/-

Correlation of Rv0762c/- with Rv0076c/-

Normalized LFCs for Rv0762c/-:
(description and provenance of datasets)

	Rv0762c/-	Rv0076c/-
Fe_supp_jason_reseq	0.283	-0.559
low_pH_jason_reseq	-0.714	0.234
NO_jason_reseq	-0.095	-2.184
B6_jason_reseq	-0.387	-0.605
MHCII_jason_reseq	-0.012	-0.346
Isoniazid02	0.049	-1.0
Rifampicin4	0.328	0.799
Ethambutol3	0.73	-0.209
Meropenem3	0.9	-0.615
Vancomycin16	0.769	-0.106
Rv2680_day32	0.562	-0.077
H37Rv_KO_MarP	1.232	0.817
hypoxia_3wks	-0.75	-0.064
hypoxia_6wks	-0.476	-0.524
glycerol	-0.704	-0.471
cholesterol	-0.595	0.395
AJ	1.01	0.091
Bibs02	0.502	0.481
Bibs02c	0.141	-0.073
BL6	1.144	0.653
BL6a	1.016	0.64
BXD01	0.417	0.973
BXD010	1.631	2.436
BXD011	0.889	0.814
BXD03	0.542	1.385
BXD04	0.679	0.041
BXD05	1.076	0.68
BXD06	0.733	1.004
BXD07	1.174	0.979
BXD08	0.674	0.929
BXD09	0.923	1.404
CAST	0.192	0.963
CCcont	0.829	1.571
DS01	0.648	0.811
DS02	0.074	1.741
DS04	0.777	3.287
DS0c	0.919	0.503
GP01	0.563	-0.396
GP02	0.25	0.875
GP0c	0.365	1.028
NOD	0.0	0.753
NZO	1.41	1.123
PWK	-0.142	0.61
H37Rv_KO_CtpC	0.213	1.058
H37Rv_KO_CtpD	-1.328	-1.286
H37Rv_KO_Rv1272	-0.284	1.515
H37Rv_KO_SugABC	0.877	-0.183
H37Rv_KO_MbtN	0.127	0.643
Trans05	0.745	1.004
macrophage_unactivated	2.137	2.153
IL1	-0.314	-0.077
Rapamycin	0.043	0.012
Tcell	1.877	0.603
GMCSF	0.209	-0.457
IFNab	0.021	0.012
IFNg	0.756	1.211
IFNg_GMCSF1	-0.173	0.261
Rv1432_day32	0.364	0.691
Rv1565c_day32	-0.019	-1.194
secA2_input	-1.099	0.773
delta_Rv3594	0.486	-1.227
delta_Rv3717	0.193	-1.034
delta_Rv3811	0.031	-1.478
delta_Rv0954	0.094	-0.972
PonA1	-0.24	-0.891
EccD1_KO	-0.382	-0.322
EspI_KO	-0.479	-0.876
PE35_KO	-0.082	-0.12
PPE68_KO	-0.214	-0.611
glycerol2	0.433	-0.008
lignocerate	0.762	0.253
oleate	-0.312	-0.021
phosphatidylcholine	0.604	-0.091
acetate	1.007	-0.199
glucAc	1.034	2.151
Rv0950ko	-0.914	0.154
Rv1096ko	-0.338	-0.594
Rv3684ko	-0.396	0.2
delta_otsA_trehalose	0.118	0.183