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 Rv1081c/-:

update plot	correlation	link to info on gene
Rv0537c/-	(cc=0.5682)	info on Rv0537c/-
Rv3067/-	(cc=0.5503)	info on Rv3067/-
Rv0062/celA1	(cc=0.5082)	info on Rv0062/celA1
Rv0538/-	(cc=0.4837)	info on Rv0538/-
Rv1458c/-	(cc=0.4693)	info on Rv1458c/-
Rv2908c/-	(cc=0.4638)	info on Rv2908c/-
Rv2375/-	(cc=0.4553)	info on Rv2375/-
Rv3916c/-	(cc=0.4543)	info on Rv3916c/-
Rv1845c/blaR	(cc=0.4414)	info on Rv1845c/blaR
Rv2926c/-	(cc=0.4261)	info on Rv2926c/-

Correlation of Rv1081c/- with Rv0538/-

Normalized LFCs for Rv1081c/-:
(description and provenance of datasets)

	Rv1081c/-	Rv0538/-
Fe_supp_jason_reseq	0.415	0.474
low_pH_jason_reseq	0.0	2.175
NO_jason_reseq	0.0	-0.095
B6_jason_reseq	0.0	0.797
MHCII_jason_reseq	0.0	0.293
Isoniazid02	-0.65	-0.045
Rifampicin4	-0.872	-1.976
Ethambutol3	0.22	2.004
Meropenem3	-0.386	-0.526
Vancomycin16	-1.186	-4.457
Rv2680_day32	0.095	-0.5
H37Rv_KO_MarP	2.237	6.0
hypoxia_3wks	0.0	-0.925
hypoxia_6wks	0.0	-0.457
glycerol	0.0	1.423
cholesterol	0.398	0.39
AJ	0.0	0.205
Bibs02	0.0	1.201
Bibs02c	0.0	2.042
BL6	0.125	-0.63
BL6a	0.198	0.967
BXD01	0.13	-0.793
BXD010	0.0	-1.118
BXD011	0.54	-1.533
BXD03	0.0	-0.097
BXD04	0.124	-1.036
BXD05	0.473	-0.212
BXD06	0.366	-1.096
BXD07	0.0	-0.961
BXD08	0.0	-0.514
BXD09	0.494	-1.33
CAST	0.0	-0.053
CCcont	0.285	-1.442
DS01	0.0	0.664
DS02	0.0	-0.266
DS04	0.37	0.656
DS0c	0.0	0.804
GP01	0.0	-0.548
GP02	0.0	0.168
GP0c	0.0	-0.404
NOD	0.0	-0.542
NZO	0.0	0.045
PWK	0.0	-0.61
H37Rv_KO_CtpC	0.798	-0.72
H37Rv_KO_CtpD	0.0	-0.518
H37Rv_KO_Rv1272	0.0	-1.417
H37Rv_KO_SugABC	0.0	-0.308
H37Rv_KO_MbtN	0.633	-0.409
Trans05	0.0	-0.869
macrophage_unactivated	0.0	-1.401
IL1	0.0	-0.988
Rapamycin	0.0	-1.188
Tcell	0.0	-1.447
GMCSF	0.0	-0.605
IFNab	0.0	-0.898
IFNg	0.0	-0.441
IFNg_GMCSF1	0.0	-0.468
Rv1432_day32	0.0	-0.917
Rv1565c_day32	0.0	-1.831
secA2_input	0.739	0.953
delta_Rv3594	-1.205	0.661
delta_Rv3717	-0.555	-0.322
delta_Rv3811	-0.369	0.691
delta_Rv0954	-0.207	0.342
PonA1	0.389	0.125
EccD1_KO	0.286	-0.612
EspI_KO	-0.55	-0.24
PE35_KO	0.0	0.0
PPE68_KO	-0.298	-0.23
glycerol2	0.0	-0.688
lignocerate	0.0	-0.785
oleate	0.0	-0.113
phosphatidylcholine	0.0	-0.447
acetate	0.0	-0.347
glucAc	0.0	-0.868
Rv0950ko	0.0	0.38
Rv1096ko	-0.302	0.118
Rv3684ko	1.117	0.789
delta_otsA_trehalose	-1.098	-0.821