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 Rv3381c/-:

update plot	correlation	link to info on gene
Rv1370c/-	(cc=0.8699)	info on Rv1370c/-
Rv2648/-	(cc=0.8436)	info on Rv2648/-
Rv3325/-	(cc=0.8349)	info on Rv3325/-
Rv1757c/-	(cc=0.8085)	info on Rv1757c/-
Rv2105/-	(cc=0.8048)	info on Rv2105/-
Rv1763/-	(cc=0.8046)	info on Rv1763/-
Rv3474/-	(cc=0.7767)	info on Rv3474/-
Rv2815c/-	(cc=0.7589)	info on Rv2815c/-
Rv0795/-	(cc=0.7273)	info on Rv0795/-
Rv2278/-	(cc=0.7084)	info on Rv2278/-

Correlation of Rv3381c/- with Rv3474/-

Normalized LFCs for Rv3381c/-:
(description and provenance of datasets)

	Rv3381c/-	Rv3474/-
Fe_supp_jason_reseq	0.027	-0.355
low_pH_jason_reseq	0.413	0.765
NO_jason_reseq	0.137	0.428
B6_jason_reseq	-0.307	-0.894
MHCII_jason_reseq	0.322	-0.33
Isoniazid02	-0.191	0.009
Rifampicin4	0.068	0.696
Ethambutol3	1.231	1.379
Meropenem3	-0.375	-0.174
Vancomycin16	-0.066	0.377
Rv2680_day32	0.005	0.045
H37Rv_KO_MarP	-0.234	-0.363
hypoxia_3wks	0.865	1.12
hypoxia_6wks	0.0	0.232
glycerol	-0.654	-0.538
cholesterol	-0.163	0.206
AJ	1.198	1.624
Bibs02	0.102	0.46
Bibs02c	0.9	0.793
BL6	-0.594	0.018
BL6a	0.37	0.389
BXD01	-0.016	0.625
BXD010	0.163	0.743
BXD011	-0.021	0.595
BXD03	0.096	0.749
BXD04	-0.263	0.485
BXD05	0.332	0.788
BXD06	0.121	0.519
BXD07	0.221	0.668
BXD08	-0.131	0.414
BXD09	-0.314	0.433
CAST	0.649	1.046
CCcont	-0.727	-0.306
DS01	0.696	0.869
DS02	0.627	0.605
DS04	0.559	0.443
DS0c	1.105	1.106
GP01	0.821	1.145
GP02	1.283	1.363
GP0c	0.175	0.531
NOD	0.295	0.781
NZO	1.045	1.425
PWK	1.38	1.51
H37Rv_KO_CtpC	0.542	0.408
H37Rv_KO_CtpD	0.184	0.185
H37Rv_KO_Rv1272	-0.139	0.397
H37Rv_KO_SugABC	-0.206	0.388
H37Rv_KO_MbtN	0.939	0.955
Trans05	0.348	0.477
macrophage_unactivated	-1.001	-0.47
IL1	-1.166	-0.958
Rapamycin	-0.608	-0.479
Tcell	-1.916	-1.261
GMCSF	-0.504	-1.001
IFNab	-1.11	-0.535
IFNg	-0.847	-0.684
IFNg_GMCSF1	0.082	0.151
Rv1432_day32	1.245	1.159
Rv1565c_day32	-0.322	-0.698
secA2_input	-0.127	0.282
delta_Rv3594	-0.047	-0.089
delta_Rv3717	-0.262	-0.488
delta_Rv3811	-0.352	-0.665
delta_Rv0954	-0.063	0.258
PonA1	-0.871	-0.629
EccD1_KO	-0.539	-1.204
EspI_KO	0.887	-0.462
PE35_KO	0.744	0.411
PPE68_KO	0.435	-0.384
glycerol2	0.284	0.045
lignocerate	0.118	-0.304
oleate	0.149	0.045
phosphatidylcholine	0.228	0.022
acetate	2.045	0.876
glucAc	2.18	1.34
Rv0950ko	0.332	-0.1
Rv1096ko	0.274	0.136
Rv3684ko	0.016	-1.136
delta_otsA_trehalose	0.201	0.515