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 Rv2955c/-:

update plot	correlation	link to info on gene
Rv2293c/-	(cc=0.5756)	info on Rv2293c/-
Rv1869c/-	(cc=0.5335)	info on Rv1869c/-
Rv2367c/-	(cc=0.5117)	info on Rv2367c/-
Rv2867c/-	(cc=0.4896)	info on Rv2867c/-
Rv1251c/-	(cc=0.4841)	info on Rv1251c/-
Rv2041c/-	(cc=0.4663)	info on Rv2041c/-
Rv2303c/-	(cc=0.4461)	info on Rv2303c/-
Rv3479/-	(cc=0.4372)	info on Rv3479/-
Rv0149/-	(cc=0.4276)	info on Rv0149/-
Rv0990c/-	(cc=0.4227)	info on Rv0990c/-

Correlation of Rv2955c/- with Rv3479/-

Normalized LFCs for Rv2955c/-:
(description and provenance of datasets)

	Rv2955c/-	Rv3479/-
Fe_supp_jason_reseq	-0.931	-0.426
low_pH_jason_reseq	0.649	-0.544
NO_jason_reseq	-0.026	0.173
B6_jason_reseq	-0.206	0.097
MHCII_jason_reseq	0.575	0.155
Isoniazid02	0.185	0.955
Rifampicin4	0.644	-0.428
Ethambutol3	0.66	1.175
Meropenem3	2.825	1.544
Vancomycin16	0.162	-0.419
Rv2680_day32	-0.117	1.463
H37Rv_KO_MarP	-0.063	0.374
hypoxia_3wks	0.251	-1.372
hypoxia_6wks	0.0	-0.591
glycerol	0.87	0.212
cholesterol	0.101	-0.55
AJ	0.511	0.398
Bibs02	0.576	-0.658
Bibs02c	-0.189	-0.596
BL6	-0.258	0.051
BL6a	-0.118	-0.294
BXD01	0.396	-0.009
BXD010	0.326	-0.15
BXD011	-0.417	-0.082
BXD03	-0.08	-0.168
BXD04	0.509	0.357
BXD05	0.256	0.175
BXD06	-0.059	-0.126
BXD07	-0.071	-0.119
BXD08	0.541	-0.241
BXD09	-0.01	0.0
CAST	-0.102	0.475
CCcont	-0.183	-0.118
DS01	-0.233	-0.37
DS02	0.454	-0.046
DS04	0.096	-0.197
DS0c	0.181	-0.091
GP01	-0.893	-0.071
GP02	0.041	0.045
GP0c	-0.118	-0.765
NOD	0.033	0.016
NZO	0.802	0.478
PWK	0.466	0.371
H37Rv_KO_CtpC	0.091	-0.294
H37Rv_KO_CtpD	0.218	0.109
H37Rv_KO_Rv1272	-1.094	-0.73
H37Rv_KO_SugABC	0.441	0.17
H37Rv_KO_MbtN	0.547	0.594
Trans05	0.473	-0.055
macrophage_unactivated	-0.877	-0.278
IL1	0.107	0.062
Rapamycin	-0.169	-0.132
Tcell	-0.661	-0.593
GMCSF	-0.048	0.219
IFNab	-0.52	-0.372
IFNg	-0.072	0.056
IFNg_GMCSF1	0.057	-0.277
Rv1432_day32	0.9	2.477
Rv1565c_day32	-1.208	0.603
secA2_input	-0.099	0.33
delta_Rv3594	-0.288	-0.106
delta_Rv3717	-0.677	-0.064
delta_Rv3811	-0.464	0.073
delta_Rv0954	0.111	0.318
PonA1	-0.466	0.701
EccD1_KO	0.194	0.918
EspI_KO	1.027	0.91
PE35_KO	0.968	1.114
PPE68_KO	0.937	0.675
glycerol2	-0.722	0.202
lignocerate	-0.887	0.25
oleate	-0.305	-0.457
phosphatidylcholine	-0.612	-0.14
acetate	-1.006	-0.19
glucAc	-0.933	0.096
Rv0950ko	-0.823	-0.621
Rv1096ko	-0.283	0.434
Rv3684ko	-1.307	-0.524
delta_otsA_trehalose	-0.081	-0.083