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 Rv0273c/-

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

	Rv1191/-	Rv0273c/-
Fe_supp_jason_reseq	-1.689	-0.497
low_pH_jason_reseq	-1.544	-0.465
NO_jason_reseq	-0.546	-0.16
B6_jason_reseq	-1.175	-0.25
MHCII_jason_reseq	0.137	0.358
Isoniazid02	-0.333	0.24
Rifampicin4	0.455	0.0
Ethambutol3	0.049	0.338
Meropenem3	3.004	3.393
Vancomycin16	-0.037	0.738
Rv2680_day32	0.224	-0.305
H37Rv_KO_MarP	0.096	0.941
hypoxia_3wks	0.195	0.203
hypoxia_6wks	-0.487	0.0
glycerol	1.063	0.0
cholesterol	0.683	-0.396
AJ	-0.385	-0.17
Bibs02	-0.123	-0.827
Bibs02c	-0.362	-0.459
BL6	0.314	0.42
BL6a	-0.343	-0.237
BXD01	0.772	0.896
BXD010	0.418	-1.253
BXD011	0.183	0.427
BXD03	-0.342	-0.099
BXD04	0.366	0.427
BXD05	-0.134	0.195
BXD06	-0.398	0.786
BXD07	-0.403	0.361
BXD08	1.069	-0.039
BXD09	-0.409	0.204
CAST	-0.43	0.063
CCcont	-0.971	0.102
DS01	-1.129	-0.32
DS02	-1.252	-0.983
DS04	-0.193	0.305
DS0c	-1.017	-0.328
GP01	-0.018	0.858
GP02	1.19	-0.452
GP0c	-0.473	0.311
NOD	-1.316	-0.13
NZO	-0.048	0.669
PWK	0.321	-0.028
H37Rv_KO_CtpC	-0.498	0.545
H37Rv_KO_CtpD	-0.629	-0.112
H37Rv_KO_Rv1272	0.732	0.796
H37Rv_KO_SugABC	-0.098	0.447
H37Rv_KO_MbtN	0.435	-0.636
Trans05	1.466	0.648
macrophage_unactivated	-0.379	0.0
IL1	-1.204	-0.581
Rapamycin	0.028	0.236
Tcell	-0.088	0.411
GMCSF	-0.951	-1.31
IFNab	-1.336	-0.877
IFNg	-0.903	-0.446
IFNg_GMCSF1	-0.99	0.082
Rv1432_day32	-0.034	0.155
Rv1565c_day32	-0.472	0.306
secA2_input	-0.883	1.335
delta_Rv3594	-0.541	0.067
delta_Rv3717	-0.209	0.307
delta_Rv3811	-0.39	0.745
delta_Rv0954	0.382	-0.028
PonA1	0.172	0.366
EccD1_KO	-0.46	-0.977
EspI_KO	-1.041	-0.228
PE35_KO	-0.986	-0.201
PPE68_KO	-1.344	-0.413
glycerol2	0.321	0.752
lignocerate	-0.423	0.444
oleate	0.784	0.669
phosphatidylcholine	0.374	0.776
acetate	-0.545	0.106
glucAc	-1.392	-0.363
Rv0950ko	0.027	0.443
Rv1096ko	0.609	0.115
Rv3684ko	0.832	-0.085
delta_otsA_trehalose	-0.704	-2.517