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 Rv2926c/-

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

	Rv1081c/-	Rv2926c/-
Fe_supp_jason_reseq	0.415	2.193
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	-0.378
B6_jason_reseq	0.0	0.991
MHCII_jason_reseq	0.0	0.355
Isoniazid02	-0.65	0.489
Rifampicin4	-0.872	-2.366
Ethambutol3	0.22	-0.418
Meropenem3	-0.386	-0.701
Vancomycin16	-1.186	-1.494
Rv2680_day32	0.095	2.465
H37Rv_KO_MarP	2.237	1.341
hypoxia_3wks	0.0	1.416
hypoxia_6wks	0.0	-0.378
glycerol	0.0	-1.314
cholesterol	0.398	-1.246
AJ	0.0	2.303
Bibs02	0.0	-0.048
Bibs02c	0.0	0.39
BL6	0.125	-0.647
BL6a	0.198	0.41
BXD01	0.13	0.876
BXD010	0.0	1.097
BXD011	0.54	0.0
BXD03	0.0	-0.108
BXD04	0.124	0.23
BXD05	0.473	1.401
BXD06	0.366	0.0
BXD07	0.0	0.476
BXD08	0.0	1.516
BXD09	0.494	1.187
CAST	0.0	-1.391
CCcont	0.285	0.694
DS01	0.0	-0.941
DS02	0.0	0.451
DS04	0.37	0.443
DS0c	0.0	-1.516
GP01	0.0	1.134
GP02	0.0	0.316
GP0c	0.0	0.374
NOD	0.0	-1.069
NZO	0.0	0.993
PWK	0.0	-1.098
H37Rv_KO_CtpC	0.798	2.332
H37Rv_KO_CtpD	0.0	0.868
H37Rv_KO_Rv1272	0.0	-0.616
H37Rv_KO_SugABC	0.0	-1.112
H37Rv_KO_MbtN	0.633	0.446
Trans05	0.0	0.127
macrophage_unactivated	0.0	1.711
IL1	0.0	-0.647
Rapamycin	0.0	0.371
Tcell	0.0	1.414
GMCSF	0.0	-1.545
IFNab	0.0	-0.934
IFNg	0.0	0.791
IFNg_GMCSF1	0.0	1.244
Rv1432_day32	0.0	0.297
Rv1565c_day32	0.0	-0.281
secA2_input	0.739	-0.169
delta_Rv3594	-1.205	-1.608
delta_Rv3717	-0.555	-1.504
delta_Rv3811	-0.369	-1.231
delta_Rv0954	-0.207	-0.632
PonA1	0.389	-0.704
EccD1_KO	0.286	0.523
EspI_KO	-0.55	-0.068
PE35_KO	0.0	1.415
PPE68_KO	-0.298	-0.403
glycerol2	0.0	0.038
lignocerate	0.0	-0.861
oleate	0.0	0.34
phosphatidylcholine	0.0	0.146
acetate	0.0	-0.987
glucAc	0.0	-1.706
Rv0950ko	0.0	-0.727
Rv1096ko	-0.302	-1.505
Rv3684ko	1.117	0.213
delta_otsA_trehalose	-1.098	-0.943