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 Rv0376c/-:

update plot	correlation	link to info on gene
Rv3366/spoU	(cc=0.5989)	info on Rv3366/spoU
Rv3897c/-	(cc=0.5866)	info on Rv3897c/-
Rv3705A/-	(cc=0.5554)	info on Rv3705A/-
Rv0887c/-	(cc=0.5547)	info on Rv0887c/-
Rv0593/lprL	(cc=0.5537)	info on Rv0593/lprL
Rv2625c/-	(cc=0.5517)	info on Rv2625c/-
Rv0359/-	(cc=0.5513)	info on Rv0359/-
Rv3295/-	(cc=0.5507)	info on Rv3295/-
Rv0379/secE2	(cc=0.5506)	info on Rv0379/secE2
Rv0079/-	(cc=0.5445)	info on Rv0079/-

Correlation of Rv0376c/- with Rv3897c/-

Normalized LFCs for Rv0376c/-:
(description and provenance of datasets)

	Rv0376c/-	Rv3897c/-
Fe_supp_jason_reseq	-0.63	0.082
low_pH_jason_reseq	-1.325	-0.552
NO_jason_reseq	-0.795	-1.257
B6_jason_reseq	-0.028	0.291
MHCII_jason_reseq	-0.012	0.249
Isoniazid02	-0.518	0.07
Rifampicin4	0.208	0.785
Ethambutol3	-0.411	0.502
Meropenem3	0.008	0.806
Vancomycin16	-0.175	0.345
Rv2680_day32	-0.134	2.136
H37Rv_KO_MarP	0.415	0.313
hypoxia_3wks	-0.223	-0.754
hypoxia_6wks	0.524	-0.307
glycerol	0.607	0.96
cholesterol	0.238	0.497
AJ	0.481	1.434
Bibs02	0.706	1.359
Bibs02c	0.252	1.761
BL6	0.311	0.482
BL6a	-0.139	0.558
BXD01	-0.309	0.25
BXD010	-0.717	0.253
BXD011	-0.695	-0.312
BXD03	-0.49	0.03
BXD04	-0.39	-0.137
BXD05	0.655	-0.849
BXD06	-0.868	0.133
BXD07	-0.735	-0.3
BXD08	-0.706	-0.62
BXD09	-0.982	-0.469
CAST	0.242	0.339
CCcont	-0.752	0.259
DS01	0.828	0.253
DS02	1.15	1.174
DS04	-0.32	0.59
DS0c	0.812	-0.277
GP01	0.081	0.834
GP02	-0.097	1.263
GP0c	-0.41	0.48
NOD	0.418	0.286
NZO	-0.432	0.799
PWK	-0.102	0.519
H37Rv_KO_CtpC	-0.352	-0.049
H37Rv_KO_CtpD	-0.691	-0.262
H37Rv_KO_Rv1272	-0.81	0.347
H37Rv_KO_SugABC	-1.064	0.126
H37Rv_KO_MbtN	-0.756	0.111
Trans05	0.167	1.091
macrophage_unactivated	-1.234	-1.174
IL1	-0.632	-1.634
Rapamycin	-0.786	-0.273
Tcell	-0.495	-1.14
GMCSF	-0.454	0.024
IFNab	-1.327	-0.16
IFNg	-0.684	-1.179
IFNg_GMCSF1	-1.084	-0.899
Rv1432_day32	-0.481	0.375
Rv1565c_day32	0.676	-0.199
secA2_input	1.061	1.019
delta_Rv3594	-0.159	0.228
delta_Rv3717	0.292	0.263
delta_Rv3811	0.449	0.503
delta_Rv0954	0.425	-0.456
PonA1	1.338	0.287
EccD1_KO	-0.947	1.128
EspI_KO	-0.097	-0.077
PE35_KO	-0.382	0.172
PPE68_KO	-0.419	0.208
glycerol2	0.395	0.856
lignocerate	0.958	1.299
oleate	0.432	0.133
phosphatidylcholine	0.64	0.668
acetate	0.826	1.219
glucAc	0.974	1.534
Rv0950ko	1.505	1.785
Rv1096ko	1.972	1.984
Rv3684ko	2.06	1.402
delta_otsA_trehalose	-1.522	-0.623