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 Rv1508A/-:

update plot	correlation	link to info on gene
Rv2998/-	(cc=0.5325)	info on Rv2998/-
Rv1984c/cfp21	(cc=0.5097)	info on Rv1984c/cfp21
Rv1903/-	(cc=0.5065)	info on Rv1903/-
Rv0691c/-	(cc=0.4931)	info on Rv0691c/-
Rv2977c/thiL	(cc=0.4739)	info on Rv2977c/thiL
Rv1215c/-	(cc=0.4668)	info on Rv1215c/-
Rv2819c/-	(cc=0.4578)	info on Rv2819c/-
Rv2492/-	(cc=0.4572)	info on Rv2492/-
Rv1583c/-	(cc=0.4443)	info on Rv1583c/-
Rv2929/-	(cc=0.4418)	info on Rv2929/-

Correlation of Rv1508A/- with Rv2819c/-

Normalized LFCs for Rv1508A/-:
(description and provenance of datasets)

	Rv1508A/-	Rv2819c/-
Fe_supp_jason_reseq	0.608	0.257
low_pH_jason_reseq	0.279	-0.032
NO_jason_reseq	0.116	0.05
B6_jason_reseq	-0.172	0.083
MHCII_jason_reseq	-0.921	0.392
Isoniazid02	-0.662	-0.18
Rifampicin4	-0.36	0.406
Ethambutol3	1.415	1.216
Meropenem3	-0.252	-0.2
Vancomycin16	-0.48	0.255
Rv2680_day32	-0.352	0.526
H37Rv_KO_MarP	0.509	-0.255
hypoxia_3wks	-0.921	-0.506
hypoxia_6wks	0.489	-0.196
glycerol	-0.974	0.149
cholesterol	-0.19	0.49
AJ	0.36	1.397
Bibs02	-1.407	0.449
Bibs02c	0.243	1.205
BL6	0.497	0.652
BL6a	-0.07	1.124
BXD01	0.131	0.761
BXD010	0.31	0.543
BXD011	-0.3	0.591
BXD03	0.418	0.755
BXD04	0.011	0.498
BXD05	-0.331	0.611
BXD06	0.046	0.757
BXD07	-0.223	0.642
BXD08	-0.122	0.294
BXD09	0.185	0.652
CAST	0.475	0.48
CCcont	-0.21	0.938
DS01	0.0	1.025
DS02	-0.584	0.312
DS04	-0.178	-0.122
DS0c	-0.097	1.152
GP01	0.68	0.958
GP02	0.084	1.04
GP0c	0.182	0.714
NOD	-0.02	0.858
NZO	-0.751	0.653
PWK	-0.217	2.593
H37Rv_KO_CtpC	0.201	0.992
H37Rv_KO_CtpD	1.846	-0.144
H37Rv_KO_Rv1272	1.664	0.774
H37Rv_KO_SugABC	-1.846	0.194
H37Rv_KO_MbtN	-0.266	1.627
Trans05	0.788	1.227
macrophage_unactivated	0.385	-0.205
IL1	-0.742	-0.193
Rapamycin	0.117	0.374
Tcell	0.283	0.202
GMCSF	-0.069	0.164
IFNab	-0.363	0.0
IFNg	-0.548	-0.219
IFNg_GMCSF1	-0.204	0.148
Rv1432_day32	0.811	0.87
Rv1565c_day32	-0.55	-0.935
secA2_input	-0.612	-1.116
delta_Rv3594	-1.848	0.0
delta_Rv3717	-1.063	-0.292
delta_Rv3811	-0.842	0.085
delta_Rv0954	-1.008	-1.056
PonA1	-0.374	-0.464
EccD1_KO	0.118	0.378
EspI_KO	-0.519	0.516
PE35_KO	1.038	2.106
PPE68_KO	1.107	1.769
glycerol2	-0.113	1.002
lignocerate	0.138	1.189
oleate	-0.155	0.438
phosphatidylcholine	0.322	1.028
acetate	0.086	1.107
glucAc	0.166	0.709
Rv0950ko	-0.163	-1.013
Rv1096ko	-1.019	-0.805
Rv3684ko	-0.684	-1.336
delta_otsA_trehalose	-2.369	-0.851