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 Rv2769c/PE27

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

	Rv1191/-	Rv2769c/PE27
Fe_supp_jason_reseq	-1.689	-0.159
low_pH_jason_reseq	-1.544	0.306
NO_jason_reseq	-0.546	0.48
B6_jason_reseq	-1.175	-0.168
MHCII_jason_reseq	0.137	0.118
Isoniazid02	-0.333	0.7
Rifampicin4	0.455	0.739
Ethambutol3	0.049	0.258
Meropenem3	3.004	2.507
Vancomycin16	-0.037	0.531
Rv2680_day32	0.224	-0.134
H37Rv_KO_MarP	0.096	0.051
hypoxia_3wks	0.195	-0.136
hypoxia_6wks	-0.487	-0.084
glycerol	1.063	0.019
cholesterol	0.683	-0.445
AJ	-0.385	1.082
Bibs02	-0.123	0.413
Bibs02c	-0.362	0.049
BL6	0.314	0.584
BL6a	-0.343	-0.133
BXD01	0.772	0.836
BXD010	0.418	0.387
BXD011	0.183	0.193
BXD03	-0.342	-0.139
BXD04	0.366	-0.326
BXD05	-0.134	0.583
BXD06	-0.398	0.214
BXD07	-0.403	-0.052
BXD08	1.069	0.368
BXD09	-0.409	0.312
CAST	-0.43	0.225
CCcont	-0.971	0.021
DS01	-1.129	0.378
DS02	-1.252	0.789
DS04	-0.193	0.364
DS0c	-1.017	0.809
GP01	-0.018	0.273
GP02	1.19	0.288
GP0c	-0.473	0.419
NOD	-1.316	-0.926
NZO	-0.048	0.637
PWK	0.321	0.183
H37Rv_KO_CtpC	-0.498	-0.201
H37Rv_KO_CtpD	-0.629	-0.312
H37Rv_KO_Rv1272	0.732	0.711
H37Rv_KO_SugABC	-0.098	-1.33
H37Rv_KO_MbtN	0.435	0.148
Trans05	1.466	0.448
macrophage_unactivated	-0.379	-0.354
IL1	-1.204	0.018
Rapamycin	0.028	-0.439
Tcell	-0.088	0.303
GMCSF	-0.951	-0.459
IFNab	-1.336	-0.281
IFNg	-0.903	0.192
IFNg_GMCSF1	-0.99	-0.924
Rv1432_day32	-0.034	-0.139
Rv1565c_day32	-0.472	0.196
secA2_input	-0.883	-0.235
delta_Rv3594	-0.541	0.493
delta_Rv3717	-0.209	0.138
delta_Rv3811	-0.39	-0.054
delta_Rv0954	0.382	0.581
PonA1	0.172	0.641
EccD1_KO	-0.46	0.151
EspI_KO	-1.041	0.556
PE35_KO	-0.986	0.198
PPE68_KO	-1.344	0.147
glycerol2	0.321	0.329
lignocerate	-0.423	0.497
oleate	0.784	0.544
phosphatidylcholine	0.374	0.674
acetate	-0.545	0.053
glucAc	-1.392	-0.105
Rv0950ko	0.027	0.76
Rv1096ko	0.609	0.32
Rv3684ko	0.832	0.023
delta_otsA_trehalose	-0.704	-0.69