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 Rv3803c/fbpD:

update plot	correlation	link to info on gene
Rv1918c/PPE35	(cc=0.4812)	info on Rv1918c/PPE35
Rv3349c/-	(cc=0.477)	info on Rv3349c/-
Rv3020c/esxS	(cc=0.4651)	info on Rv3020c/esxS
Rv2129c/-	(cc=0.4547)	info on Rv2129c/-
Rv3841/bfrB	(cc=0.4453)	info on Rv3841/bfrB
Rv0576/-	(cc=0.4356)	info on Rv0576/-
Rv0149/-	(cc=0.4252)	info on Rv0149/-
Rv3710/leuA	(cc=0.4251)	info on Rv3710/leuA
Rv3398c/idsA1	(cc=0.4251)	info on Rv3398c/idsA1
Rv0653c/-	(cc=0.4196)	info on Rv0653c/-

Correlation of Rv3803c/fbpD with Rv0149/-

Normalized LFCs for Rv3803c/fbpD:
(description and provenance of datasets)

	Rv3803c/fbpD	Rv0149/-
Fe_supp_jason_reseq	0.557	0.456
low_pH_jason_reseq	-0.35	-0.174
NO_jason_reseq	-2.237	0.344
B6_jason_reseq	-0.208	-0.072
MHCII_jason_reseq	-0.733	-0.111
Isoniazid02	0.604	0.46
Rifampicin4	-0.59	0.463
Ethambutol3	0.666	1.317
Meropenem3	-0.685	2.06
Vancomycin16	-0.326	0.406
Rv2680_day32	-0.599	0.49
H37Rv_KO_MarP	0.382	0.593
hypoxia_3wks	0.191	0.152
hypoxia_6wks	0.1	-0.027
glycerol	-1.701	-0.278
cholesterol	-0.293	-0.034
AJ	-0.682	0.576
Bibs02	0.117	0.282
Bibs02c	0.147	0.323
BL6	-0.673	1.501
BL6a	-0.37	0.651
BXD01	-0.008	0.846
BXD010	0.025	0.984
BXD011	-0.15	1.073
BXD03	0.035	0.429
BXD04	0.016	0.999
BXD05	0.28	1.11
BXD06	0.094	1.007
BXD07	-0.686	0.966
BXD08	-0.249	0.815
BXD09	-0.319	0.913
CAST	-0.157	0.2
CCcont	-0.854	0.804
DS01	-0.866	-0.017
DS02	-1.397	0.065
DS04	-0.077	0.458
DS0c	0.0	0.512
GP01	-1.214	0.708
GP02	0.31	0.843
GP0c	-0.144	0.413
NOD	-0.641	-0.877
NZO	0.488	0.422
PWK	-0.972	0.072
H37Rv_KO_CtpC	0.173	0.96
H37Rv_KO_CtpD	0.186	0.992
H37Rv_KO_Rv1272	1.085	0.772
H37Rv_KO_SugABC	0.117	0.68
H37Rv_KO_MbtN	0.426	0.467
Trans05	0.579	0.547
macrophage_unactivated	0.631	0.413
IL1	0.392	0.181
Rapamycin	-0.144	0.144
Tcell	0.244	0.218
GMCSF	0.668	0.665
IFNab	0.565	0.846
IFNg	0.711	0.5
IFNg_GMCSF1	1.068	0.663
Rv1432_day32	1.124	1.199
Rv1565c_day32	-1.406	-0.464
secA2_input	0.283	-0.587
delta_Rv3594	-0.02	0.06
delta_Rv3717	0.284	0.296
delta_Rv3811	-0.049	-0.152
delta_Rv0954	0.469	0.388
PonA1	-0.519	0.067
EccD1_KO	-0.51	-0.388
EspI_KO	-1.084	0.26
PE35_KO	0.085	0.283
PPE68_KO	-0.621	-0.022
glycerol2	-2.708	-0.66
lignocerate	-2.25	-0.524
oleate	-0.204	-0.24
phosphatidylcholine	-0.943	-1.006
acetate	-0.627	-1.112
glucAc	-1.378	-0.999
Rv0950ko	0.166	-0.024
Rv1096ko	-0.938	-0.268
Rv3684ko	0.023	-0.265
delta_otsA_trehalose	-0.137	0.749