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 Rv2908c/-:

update plot	correlation	link to info on gene
Rv0537c/-	(cc=0.5459)	info on Rv0537c/-
Rv0538/-	(cc=0.4889)	info on Rv0538/-
Rv3060c/-	(cc=0.4787)	info on Rv3060c/-
Rv1178/-	(cc=0.4766)	info on Rv1178/-
Rv0062/celA1	(cc=0.4757)	info on Rv0062/celA1
Rv3075c/-	(cc=0.4744)	info on Rv3075c/-
Rv1081c/-	(cc=0.4638)	info on Rv1081c/-
Rv2506/-	(cc=0.4594)	info on Rv2506/-
Rv3067/-	(cc=0.4353)	info on Rv3067/-
Rv2091c/-	(cc=0.433)	info on Rv2091c/-

Correlation of Rv2908c/- with Rv3075c/-

Normalized LFCs for Rv2908c/-:
(description and provenance of datasets)

	Rv2908c/-	Rv3075c/-
Fe_supp_jason_reseq	0.0	-0.182
low_pH_jason_reseq	0.0	0.576
NO_jason_reseq	0.0	-0.604
B6_jason_reseq	0.0	-0.243
MHCII_jason_reseq	0.0	0.343
Isoniazid02	0.0	-0.386
Rifampicin4	0.374	-0.409
Ethambutol3	2.247	2.91
Meropenem3	0.165	0.41
Vancomycin16	0.0	0.058
Rv2680_day32	0.0	0.241
H37Rv_KO_MarP	2.492	0.0
hypoxia_3wks	0.0	-0.211
hypoxia_6wks	0.0	-0.292
glycerol	0.0	0.61
cholesterol	0.145	-0.198
AJ	0.0	-0.852
Bibs02	0.0	-0.276
Bibs02c	0.0	0.024
BL6	0.0	0.05
BL6a	0.0	-0.88
BXD01	0.0	-0.25
BXD010	0.0	-0.219
BXD011	0.0	-0.209
BXD03	0.0	0.601
BXD04	0.0	0.592
BXD05	0.0	-0.483
BXD06	0.0	-0.032
BXD07	0.0	0.153
BXD08	0.0	0.349
BXD09	0.0	-0.147
CAST	0.0	-1.003
CCcont	0.149	-0.009
DS01	0.0	-0.027
DS02	0.217	-0.077
DS04	0.0	0.285
DS0c	0.0	-0.212
GP01	0.0	-0.601
GP02	0.0	0.521
GP0c	0.0	-0.699
NOD	0.0	0.078
NZO	0.199	-0.483
PWK	0.0	-0.011
H37Rv_KO_CtpC	0.0	0.092
H37Rv_KO_CtpD	0.0	0.864
H37Rv_KO_Rv1272	0.0	-0.416
H37Rv_KO_SugABC	0.0	-0.024
H37Rv_KO_MbtN	0.0	0.49
Trans05	0.0	-0.58
macrophage_unactivated	0.0	0.281
IL1	0.0	-0.092
Rapamycin	0.0	-0.288
Tcell	0.0	0.762
GMCSF	0.0	-0.248
IFNab	0.0	0.327
IFNg	0.0	0.46
IFNg_GMCSF1	0.0	-0.33
Rv1432_day32	0.0	-0.493
Rv1565c_day32	0.0	-0.644
secA2_input	0.0	0.581
delta_Rv3594	-0.176	0.231
delta_Rv3717	-0.477	-0.36
delta_Rv3811	-0.564	-0.226
delta_Rv0954	-0.49	0.888
PonA1	1.601	1.228
EccD1_KO	0.0	0.385
EspI_KO	0.0	-0.693
PE35_KO	0.403	0.286
PPE68_KO	0.0	-0.48
glycerol2	0.0	-0.053
lignocerate	0.0	0.097
oleate	0.0	0.34
phosphatidylcholine	0.0	0.122
acetate	0.63	0.214
glucAc	0.0	-0.189
Rv0950ko	0.727	0.531
Rv1096ko	0.38	0.431
Rv3684ko	0.789	1.041
delta_otsA_trehalose	0.254	0.296