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 Rv2067c/-

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

	Rv0762c/-	Rv2067c/-
Fe_supp_jason_reseq	0.283	0.284
low_pH_jason_reseq	-0.714	-0.075
NO_jason_reseq	-0.095	0.572
B6_jason_reseq	-0.387	0.049
MHCII_jason_reseq	-0.012	0.0
Isoniazid02	0.049	0.0
Rifampicin4	0.328	0.393
Ethambutol3	0.73	0.084
Meropenem3	0.9	0.818
Vancomycin16	0.769	0.159
Rv2680_day32	0.562	0.383
H37Rv_KO_MarP	1.232	-0.138
hypoxia_3wks	-0.75	-0.327
hypoxia_6wks	-0.476	0.033
glycerol	-0.704	0.05
cholesterol	-0.595	-0.112
AJ	1.01	0.61
Bibs02	0.502	0.713
Bibs02c	0.141	0.403
BL6	1.144	0.843
BL6a	1.016	0.936
BXD01	0.417	0.153
BXD010	1.631	0.919
BXD011	0.889	0.54
BXD03	0.542	0.66
BXD04	0.679	0.66
BXD05	1.076	0.646
BXD06	0.733	0.703
BXD07	1.174	0.337
BXD08	0.674	0.324
BXD09	0.923	0.572
CAST	0.192	0.444
CCcont	0.829	0.67
DS01	0.648	0.142
DS02	0.074	0.35
DS04	0.777	-0.024
DS0c	0.919	0.303
GP01	0.563	0.426
GP02	0.25	1.662
GP0c	0.365	0.078
NOD	0.0	0.633
NZO	1.41	0.12
PWK	-0.142	-0.099
H37Rv_KO_CtpC	0.213	0.06
H37Rv_KO_CtpD	-1.328	-0.132
H37Rv_KO_Rv1272	-0.284	1.155
H37Rv_KO_SugABC	0.877	0.241
H37Rv_KO_MbtN	0.127	1.744
Trans05	0.745	0.995
macrophage_unactivated	2.137	0.941
IL1	-0.314	0.483
Rapamycin	0.043	0.534
Tcell	1.877	0.453
GMCSF	0.209	0.552
IFNab	0.021	0.345
IFNg	0.756	0.465
IFNg_GMCSF1	-0.173	0.584
Rv1432_day32	0.364	0.43
Rv1565c_day32	-0.019	0.415
secA2_input	-1.099	-0.538
delta_Rv3594	0.486	0.017
delta_Rv3717	0.193	-0.176
delta_Rv3811	0.031	0.033
delta_Rv0954	0.094	-0.295
PonA1	-0.24	-0.278
EccD1_KO	-0.382	-0.536
EspI_KO	-0.479	-0.103
PE35_KO	-0.082	0.458
PPE68_KO	-0.214	0.074
glycerol2	0.433	0.333
lignocerate	0.762	0.666
oleate	-0.312	0.247
phosphatidylcholine	0.604	0.887
acetate	1.007	0.667
glucAc	1.034	0.246
Rv0950ko	-0.914	-0.154
Rv1096ko	-0.338	-0.941
Rv3684ko	-0.396	-0.236
delta_otsA_trehalose	0.118	0.61