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 Rv0418/lpqL

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

	Rv3441c/mrsA	Rv0418/lpqL
Fe_supp_jason_reseq	0.474	-0.721
low_pH_jason_reseq	-0.634	-0.105
NO_jason_reseq	-0.302	-0.459
B6_jason_reseq	-0.421	-0.445
MHCII_jason_reseq	-0.37	0.712
Isoniazid02	0.351	0.981
Rifampicin4	0.341	0.319
Ethambutol3	0.293	0.866
Meropenem3	1.95	3.701
Vancomycin16	0.334	0.459
Rv2680_day32	0.0	-1.64
H37Rv_KO_MarP	1.618	1.348
hypoxia_3wks	-0.55	-0.183
hypoxia_6wks	-0.288	-0.685
glycerol	0.385	0.543
cholesterol	0.0	0.284
AJ	0.0	-0.192
Bibs02	1.123	1.069
Bibs02c	0.0	-0.073
BL6	0.0	-0.216
BL6a	0.0	-1.065
BXD01	0.358	-1.278
BXD010	0.244	-1.018
BXD011	0.127	-0.71
BXD03	0.0	-0.862
BXD04	0.124	-1.143
BXD05	0.0	-0.674
BXD06	0.133	-1.197
BXD07	0.138	-0.668
BXD08	0.0	-1.09
BXD09	0.0	-0.783
CAST	0.0	-0.429
CCcont	1.55	-0.361
DS01	0.0	0.717
DS02	0.414	0.97
DS04	0.37	-0.136
DS0c	0.0	-0.493
GP01	0.0	-0.034
GP02	0.0	-1.034
GP0c	0.0	-0.604
NOD	0.0	0.026
NZO	0.0	-0.318
PWK	0.0	-0.649
H37Rv_KO_CtpC	0.162	-0.937
H37Rv_KO_CtpD	0.0	1.28
H37Rv_KO_Rv1272	0.0	0.25
H37Rv_KO_SugABC	0.0	0.258
H37Rv_KO_MbtN	0.0	-1.244
Trans05	0.0	-0.433
macrophage_unactivated	0.436	0.079
IL1	0.0	0.148
Rapamycin	0.0	0.847
Tcell	0.0	-0.342
GMCSF	0.0	-0.576
IFNab	0.0	0.296
IFNg	0.0	-0.139
IFNg_GMCSF1	0.0	0.157
Rv1432_day32	0.0	-0.645
Rv1565c_day32	0.0	0.567
secA2_input	0.197	0.16
delta_Rv3594	0.895	-1.94
delta_Rv3717	-0.331	-1.487
delta_Rv3811	-0.391	-1.975
delta_Rv0954	-0.34	-0.505
PonA1	-0.304	-0.993
EccD1_KO	-0.378	0.25
EspI_KO	-0.687	0.054
PE35_KO	-1.105	0.222
PPE68_KO	0.0	-0.458
glycerol2	0.0	0.15
lignocerate	0.32	-0.069
oleate	0.0	-1.581
phosphatidylcholine	0.193	-0.531
acetate	0.437	0.941
glucAc	0.501	0.378
Rv0950ko	0.0	0.238
Rv1096ko	0.905	0.573
Rv3684ko	0.0	0.383
delta_otsA_trehalose	-0.654	-0.081