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 Rv1051c/-

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

	Rv0762c/-	Rv1051c/-
Fe_supp_jason_reseq	0.283	-1.045
low_pH_jason_reseq	-0.714	-0.857
NO_jason_reseq	-0.095	0.488
B6_jason_reseq	-0.387	-2.276
MHCII_jason_reseq	-0.012	-2.004
Isoniazid02	0.049	-0.297
Rifampicin4	0.328	0.249
Ethambutol3	0.73	-0.474
Meropenem3	0.9	0.152
Vancomycin16	0.769	0.244
Rv2680_day32	0.562	2.224
H37Rv_KO_MarP	1.232	-0.343
hypoxia_3wks	-0.75	-0.096
hypoxia_6wks	-0.476	0.098
glycerol	-0.704	-0.291
cholesterol	-0.595	0.14
AJ	1.01	-0.334
Bibs02	0.502	1.386
Bibs02c	0.141	-1.314
BL6	1.144	2.642
BL6a	1.016	1.07
BXD01	0.417	1.147
BXD010	1.631	1.607
BXD011	0.889	1.404
BXD03	0.542	1.358
BXD04	0.679	1.853
BXD05	1.076	0.929
BXD06	0.733	2.123
BXD07	1.174	1.959
BXD08	0.674	1.557
BXD09	0.923	2.161
CAST	0.192	-0.938
CCcont	0.829	1.42
DS01	0.648	1.547
DS02	0.074	-0.885
DS04	0.777	4.721
DS0c	0.919	-0.074
GP01	0.563	1.156
GP02	0.25	1.7
GP0c	0.365	1.958
NOD	0.0	-1.276
NZO	1.41	0.682
PWK	-0.142	0.249
H37Rv_KO_CtpC	0.213	0.973
H37Rv_KO_CtpD	-1.328	-0.516
H37Rv_KO_Rv1272	-0.284	1.2
H37Rv_KO_SugABC	0.877	1.843
H37Rv_KO_MbtN	0.127	-0.527
Trans05	0.745	0.509
macrophage_unactivated	2.137	0.215
IL1	-0.314	0.575
Rapamycin	0.043	0.954
Tcell	1.877	0.671
GMCSF	0.209	-1.001
IFNab	0.021	0.323
IFNg	0.756	0.74
IFNg_GMCSF1	-0.173	-0.179
Rv1432_day32	0.364	0.18
Rv1565c_day32	-0.019	-0.747
secA2_input	-1.099	-0.318
delta_Rv3594	0.486	0.119
delta_Rv3717	0.193	-0.457
delta_Rv3811	0.031	-1.157
delta_Rv0954	0.094	0.243
PonA1	-0.24	1.767
EccD1_KO	-0.382	-1.194
EspI_KO	-0.479	-0.616
PE35_KO	-0.082	-0.767
PPE68_KO	-0.214	-1.683
glycerol2	0.433	0.68
lignocerate	0.762	1.987
oleate	-0.312	-1.71
phosphatidylcholine	0.604	1.367
acetate	1.007	2.608
glucAc	1.034	1.964
Rv0950ko	-0.914	0.552
Rv1096ko	-0.338	2.247
Rv3684ko	-0.396	0.0
delta_otsA_trehalose	0.118	0.02