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 Rv1191/-:

update plot	correlation	link to info on gene
Rv0273c/-	(cc=0.5107)	info on Rv0273c/-
Rv2591/PE_PGRS44	(cc=0.4738)	info on Rv2591/PE_PGRS44
Rv3344c/PE_PGRS49	(cc=0.4713)	info on Rv3344c/PE_PGRS49
Rv2487c/PE_PGRS42	(cc=0.4664)	info on Rv2487c/PE_PGRS42
Rv2850c/-	(cc=0.4455)	info on Rv2850c/-
Rv3338/-	(cc=0.4412)	info on Rv3338/-
Rv3539/PPE63	(cc=0.4401)	info on Rv3539/PPE63
Rv2769c/PE27	(cc=0.4373)	info on Rv2769c/PE27
Rv1546/-	(cc=0.436)	info on Rv1546/-
Rv1985c/-	(cc=0.4336)	info on Rv1985c/-

Correlation of Rv1191/- with Rv1985c/-

Normalized LFCs for Rv1191/-:
(description and provenance of datasets)

	Rv1191/-	Rv1985c/-
Fe_supp_jason_reseq	-1.689	-0.137
low_pH_jason_reseq	-1.544	-0.944
NO_jason_reseq	-0.546	0.11
B6_jason_reseq	-1.175	-0.292
MHCII_jason_reseq	0.137	0.107
Isoniazid02	-0.333	0.391
Rifampicin4	0.455	0.336
Ethambutol3	0.049	0.454
Meropenem3	3.004	1.809
Vancomycin16	-0.037	0.08
Rv2680_day32	0.224	-0.109
H37Rv_KO_MarP	0.096	0.041
hypoxia_3wks	0.195	-0.231
hypoxia_6wks	-0.487	0.117
glycerol	1.063	0.023
cholesterol	0.683	-0.959
AJ	-0.385	-0.287
Bibs02	-0.123	0.513
Bibs02c	-0.362	-0.415
BL6	0.314	0.316
BL6a	-0.343	-0.095
BXD01	0.772	-0.161
BXD010	0.418	0.101
BXD011	0.183	0.885
BXD03	-0.342	0.199
BXD04	0.366	-0.219
BXD05	-0.134	0.106
BXD06	-0.398	-0.097
BXD07	-0.403	0.524
BXD08	1.069	-0.728
BXD09	-0.409	0.269
CAST	-0.43	-0.425
CCcont	-0.971	-0.244
DS01	-1.129	-0.537
DS02	-1.252	-1.085
DS04	-0.193	-1.2
DS0c	-1.017	-0.984
GP01	-0.018	-0.475
GP02	1.19	-0.05
GP0c	-0.473	-0.625
NOD	-1.316	0.272
NZO	-0.048	-0.588
PWK	0.321	0.078
H37Rv_KO_CtpC	-0.498	0.334
H37Rv_KO_CtpD	-0.629	0.903
H37Rv_KO_Rv1272	0.732	0.632
H37Rv_KO_SugABC	-0.098	-0.331
H37Rv_KO_MbtN	0.435	1.092
Trans05	1.466	0.86
macrophage_unactivated	-0.379	0.47
IL1	-1.204	-0.208
Rapamycin	0.028	0.402
Tcell	-0.088	-0.323
GMCSF	-0.951	-0.074
IFNab	-1.336	-0.345
IFNg	-0.903	0.804
IFNg_GMCSF1	-0.99	-1.197
Rv1432_day32	-0.034	0.78
Rv1565c_day32	-0.472	-1.652
secA2_input	-0.883	-0.996
delta_Rv3594	-0.541	-0.598
delta_Rv3717	-0.209	-0.56
delta_Rv3811	-0.39	-0.854
delta_Rv0954	0.382	-0.133
PonA1	0.172	-0.646
EccD1_KO	-0.46	0.02
EspI_KO	-1.041	-0.488
PE35_KO	-0.986	0.0
PPE68_KO	-1.344	-0.141
glycerol2	0.321	-0.021
lignocerate	-0.423	-0.462
oleate	0.784	0.329
phosphatidylcholine	0.374	-0.031
acetate	-0.545	-0.153
glucAc	-1.392	-0.827
Rv0950ko	0.027	0.519
Rv1096ko	0.609	0.181
Rv3684ko	0.832	0.088
delta_otsA_trehalose	-0.704	0.259