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 Rv3441c/mrsA:

update plot	correlation	link to info on gene
Rv0409/ackA	(cc=0.4518)	info on Rv0409/ackA
Rv1791/PE19	(cc=0.4206)	info on Rv1791/PE19
Rv2758c/vapB21	(cc=0.4201)	info on Rv2758c/vapB21
Rv2311/-	(cc=0.411)	info on Rv2311/-
Rv0736/rslA	(cc=0.3994)	info on Rv0736/rslA
Rv0062/celA1	(cc=0.3989)	info on Rv0062/celA1
Rv3780/-	(cc=0.3982)	info on Rv3780/-
Rv0863/-	(cc=0.3961)	info on Rv0863/-
Rv1112/-	(cc=0.3942)	info on Rv1112/-
Rv0418/lpqL	(cc=0.3899)	info on Rv0418/lpqL

Correlation of Rv3441c/mrsA with Rv2311/-

Normalized LFCs for Rv3441c/mrsA:
(description and provenance of datasets)

	Rv3441c/mrsA	Rv2311/-
Fe_supp_jason_reseq	0.474	0.777
low_pH_jason_reseq	-0.634	-0.786
NO_jason_reseq	-0.302	-0.336
B6_jason_reseq	-0.421	0.515
MHCII_jason_reseq	-0.37	0.316
Isoniazid02	0.351	0.406
Rifampicin4	0.341	-0.699
Ethambutol3	0.293	0.353
Meropenem3	1.95	2.554
Vancomycin16	0.334	-0.366
Rv2680_day32	0.0	-0.392
H37Rv_KO_MarP	1.618	0.457
hypoxia_3wks	-0.55	-0.945
hypoxia_6wks	-0.288	-0.142
glycerol	0.385	0.006
cholesterol	0.0	-0.729
AJ	0.0	-0.074
Bibs02	1.123	0.086
Bibs02c	0.0	0.035
BL6	0.0	0.604
BL6a	0.0	0.6
BXD01	0.358	0.416
BXD010	0.244	0.313
BXD011	0.127	0.611
BXD03	0.0	0.262
BXD04	0.124	0.007
BXD05	0.0	0.358
BXD06	0.133	0.515
BXD07	0.138	0.533
BXD08	0.0	0.225
BXD09	0.0	0.896
CAST	0.0	0.164
CCcont	1.55	0.306
DS01	0.0	0.731
DS02	0.414	0.222
DS04	0.37	1.716
DS0c	0.0	0.143
GP01	0.0	-0.235
GP02	0.0	-1.277
GP0c	0.0	0.211
NOD	0.0	0.063
NZO	0.0	0.428
PWK	0.0	-0.138
H37Rv_KO_CtpC	0.162	-0.119
H37Rv_KO_CtpD	0.0	0.517
H37Rv_KO_Rv1272	0.0	0.226
H37Rv_KO_SugABC	0.0	-0.312
H37Rv_KO_MbtN	0.0	1.391
Trans05	0.0	0.553
macrophage_unactivated	0.436	0.77
IL1	0.0	0.356
Rapamycin	0.0	-0.307
Tcell	0.0	-0.029
GMCSF	0.0	0.024
IFNab	0.0	0.862
IFNg	0.0	-0.136
IFNg_GMCSF1	0.0	0.6
Rv1432_day32	0.0	0.338
Rv1565c_day32	0.0	-0.325
secA2_input	0.197	0.465
delta_Rv3594	0.895	0.999
delta_Rv3717	-0.331	0.628
delta_Rv3811	-0.391	0.477
delta_Rv0954	-0.34	0.832
PonA1	-0.304	-0.47
EccD1_KO	-0.378	0.22
EspI_KO	-0.687	-0.123
PE35_KO	-1.105	0.265
PPE68_KO	0.0	0.096
glycerol2	0.0	0.467
lignocerate	0.32	0.916
oleate	0.0	-0.388
phosphatidylcholine	0.193	0.857
acetate	0.437	0.545
glucAc	0.501	0.746
Rv0950ko	0.0	0.504
Rv1096ko	0.905	-0.13
Rv3684ko	0.0	0.809
delta_otsA_trehalose	-0.654	-1.41