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 Rv2375/-

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

	Rv1081c/-	Rv2375/-
Fe_supp_jason_reseq	0.415	0.587
low_pH_jason_reseq	0.0	0.51
NO_jason_reseq	0.0	-0.407
B6_jason_reseq	0.0	1.727
MHCII_jason_reseq	0.0	1.569
Isoniazid02	-0.65	-0.583
Rifampicin4	-0.872	-0.422
Ethambutol3	0.22	-0.102
Meropenem3	-0.386	-0.909
Vancomycin16	-1.186	-1.361
Rv2680_day32	0.095	0.357
H37Rv_KO_MarP	2.237	3.978
hypoxia_3wks	0.0	0.048
hypoxia_6wks	0.0	-0.086
glycerol	0.0	-1.058
cholesterol	0.398	0.879
AJ	0.0	-0.743
Bibs02	0.0	-1.155
Bibs02c	0.0	-0.584
BL6	0.125	-0.005
BL6a	0.198	0.03
BXD01	0.13	0.27
BXD010	0.0	-0.865
BXD011	0.54	0.621
BXD03	0.0	0.111
BXD04	0.124	-0.443
BXD05	0.473	0.417
BXD06	0.366	-0.463
BXD07	0.0	0.3
BXD08	0.0	0.25
BXD09	0.494	0.027
CAST	0.0	0.425
CCcont	0.285	-0.172
DS01	0.0	-0.464
DS02	0.0	0.471
DS04	0.37	-2.069
DS0c	0.0	-0.306
GP01	0.0	-0.498
GP02	0.0	0.711
GP0c	0.0	-0.6
NOD	0.0	0.664
NZO	0.0	-0.079
PWK	0.0	-0.431
H37Rv_KO_CtpC	0.798	-0.125
H37Rv_KO_CtpD	0.0	-0.893
H37Rv_KO_Rv1272	0.0	0.628
H37Rv_KO_SugABC	0.0	0.627
H37Rv_KO_MbtN	0.633	-0.217
Trans05	0.0	0.72
macrophage_unactivated	0.0	0.483
IL1	0.0	0.362
Rapamycin	0.0	-0.466
Tcell	0.0	-0.029
GMCSF	0.0	0.164
IFNab	0.0	-0.39
IFNg	0.0	0.283
IFNg_GMCSF1	0.0	-0.597
Rv1432_day32	0.0	0.995
Rv1565c_day32	0.0	1.226
secA2_input	0.739	-0.526
delta_Rv3594	-1.205	0.058
delta_Rv3717	-0.555	-0.732
delta_Rv3811	-0.369	0.103
delta_Rv0954	-0.207	0.948
PonA1	0.389	0.029
EccD1_KO	0.286	0.421
EspI_KO	-0.55	-0.491
PE35_KO	0.0	-0.948
PPE68_KO	-0.298	0.054
glycerol2	0.0	1.12
lignocerate	0.0	0.082
oleate	0.0	0.106
phosphatidylcholine	0.0	-0.832
acetate	0.0	-0.318
glucAc	0.0	0.127
Rv0950ko	0.0	0.048
Rv1096ko	-0.302	-0.67
Rv3684ko	1.117	-0.105
delta_otsA_trehalose	-1.098	-1.162