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 Rv1751/-

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

	Rv0762c/-	Rv1751/-
Fe_supp_jason_reseq	0.283	-0.385
low_pH_jason_reseq	-0.714	0.654
NO_jason_reseq	-0.095	-0.05
B6_jason_reseq	-0.387	-0.933
MHCII_jason_reseq	-0.012	-0.553
Isoniazid02	0.049	-0.389
Rifampicin4	0.328	-0.081
Ethambutol3	0.73	-0.201
Meropenem3	0.9	-0.593
Vancomycin16	0.769	-0.268
Rv2680_day32	0.562	0.99
H37Rv_KO_MarP	1.232	-0.44
hypoxia_3wks	-0.75	-0.415
hypoxia_6wks	-0.476	-1.036
glycerol	-0.704	-0.885
cholesterol	-0.595	-0.375
AJ	1.01	0.425
Bibs02	0.502	-0.164
Bibs02c	0.141	0.227
BL6	1.144	1.018
BL6a	1.016	0.631
BXD01	0.417	0.482
BXD010	1.631	0.973
BXD011	0.889	0.593
BXD03	0.542	0.296
BXD04	0.679	1.29
BXD05	1.076	0.31
BXD06	0.733	0.396
BXD07	1.174	0.455
BXD08	0.674	0.668
BXD09	0.923	0.078
CAST	0.192	-0.207
CCcont	0.829	0.982
DS01	0.648	0.257
DS02	0.074	-0.685
DS04	0.777	1.058
DS0c	0.919	0.0
GP01	0.563	0.478
GP02	0.25	0.688
GP0c	0.365	0.653
NOD	0.0	0.244
NZO	1.41	0.757
PWK	-0.142	-0.028
H37Rv_KO_CtpC	0.213	0.43
H37Rv_KO_CtpD	-1.328	-1.65
H37Rv_KO_Rv1272	-0.284	0.079
H37Rv_KO_SugABC	0.877	0.606
H37Rv_KO_MbtN	0.127	0.891
Trans05	0.745	0.496
macrophage_unactivated	2.137	0.123
IL1	-0.314	-0.765
Rapamycin	0.043	0.347
Tcell	1.877	-0.042
GMCSF	0.209	-0.517
IFNab	0.021	-0.593
IFNg	0.756	-0.254
IFNg_GMCSF1	-0.173	-0.167
Rv1432_day32	0.364	-0.763
Rv1565c_day32	-0.019	0.625
secA2_input	-1.099	-0.515
delta_Rv3594	0.486	0.716
delta_Rv3717	0.193	0.108
delta_Rv3811	0.031	1.08
delta_Rv0954	0.094	0.176
PonA1	-0.24	0.668
EccD1_KO	-0.382	-0.22
EspI_KO	-0.479	-0.046
PE35_KO	-0.082	0.321
PPE68_KO	-0.214	0.637
glycerol2	0.433	0.021
lignocerate	0.762	0.638
oleate	-0.312	-0.675
phosphatidylcholine	0.604	0.238
acetate	1.007	0.708
glucAc	1.034	1.36
Rv0950ko	-0.914	-0.308
Rv1096ko	-0.338	0.642
Rv3684ko	-0.396	-0.052
delta_otsA_trehalose	0.118	1.676