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 Rv0062/celA1

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

	Rv3441c/mrsA	Rv0062/celA1
Fe_supp_jason_reseq	0.474	-0.707
low_pH_jason_reseq	-0.634	-0.795
NO_jason_reseq	-0.302	0.05
B6_jason_reseq	-0.421	-0.458
MHCII_jason_reseq	-0.37	-0.873
Isoniazid02	0.351	-0.236
Rifampicin4	0.341	0.791
Ethambutol3	0.293	0.46
Meropenem3	1.95	-1.385
Vancomycin16	0.334	-0.602
Rv2680_day32	0.0	-0.151
H37Rv_KO_MarP	1.618	4.058
hypoxia_3wks	-0.55	-0.267
hypoxia_6wks	-0.288	-0.098
glycerol	0.385	0.407
cholesterol	0.0	0.238
AJ	0.0	-0.452
Bibs02	1.123	0.725
Bibs02c	0.0	-0.111
BL6	0.0	0.628
BL6a	0.0	0.235
BXD01	0.358	0.206
BXD010	0.244	0.349
BXD011	0.127	-0.248
BXD03	0.0	0.169
BXD04	0.124	0.714
BXD05	0.0	-0.192
BXD06	0.133	-0.411
BXD07	0.138	0.05
BXD08	0.0	0.392
BXD09	0.0	0.194
CAST	0.0	-0.349
CCcont	1.55	0.592
DS01	0.0	0.643
DS02	0.414	1.227
DS04	0.37	1.706
DS0c	0.0	0.49
GP01	0.0	-0.534
GP02	0.0	0.137
GP0c	0.0	-0.565
NOD	0.0	-0.438
NZO	0.0	-0.634
PWK	0.0	-0.166
H37Rv_KO_CtpC	0.162	0.161
H37Rv_KO_CtpD	0.0	0.855
H37Rv_KO_Rv1272	0.0	0.195
H37Rv_KO_SugABC	0.0	0.432
H37Rv_KO_MbtN	0.0	0.214
Trans05	0.0	0.385
macrophage_unactivated	0.436	0.271
IL1	0.0	-0.303
Rapamycin	0.0	-0.249
Tcell	0.0	0.127
GMCSF	0.0	0.325
IFNab	0.0	0.148
IFNg	0.0	-0.989
IFNg_GMCSF1	0.0	-0.126
Rv1432_day32	0.0	0.27
Rv1565c_day32	0.0	-0.246
secA2_input	0.197	-0.661
delta_Rv3594	0.895	-1.103
delta_Rv3717	-0.331	-0.593
delta_Rv3811	-0.391	-1.191
delta_Rv0954	-0.34	-0.846
PonA1	-0.304	-0.563
EccD1_KO	-0.378	-0.582
EspI_KO	-0.687	-0.887
PE35_KO	-1.105	-0.49
PPE68_KO	0.0	-0.819
glycerol2	0.0	0.544
lignocerate	0.32	0.708
oleate	0.0	0.061
phosphatidylcholine	0.193	0.588
acetate	0.437	0.575
glucAc	0.501	0.777
Rv0950ko	0.0	0.564
Rv1096ko	0.905	0.154
Rv3684ko	0.0	0.0
delta_otsA_trehalose	-0.654	-0.533