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 Rv0943c/-:

update plot	correlation	link to info on gene
Rv0478/deoC	(cc=0.4425)	info on Rv0478/deoC
Rv3735/-	(cc=0.4209)	info on Rv3735/-
Rv0100/-	(cc=0.419)	info on Rv0100/-
Rv3141/fadB4	(cc=0.4189)	info on Rv3141/fadB4
Rv3741c/-	(cc=0.4173)	info on Rv3741c/-
Rv2833c/ugpB	(cc=0.4127)	info on Rv2833c/ugpB
Rv0494/-	(cc=0.4061)	info on Rv0494/-
Rv0463/-	(cc=0.4057)	info on Rv0463/-
Rv2417c/-	(cc=0.3941)	info on Rv2417c/-
Rv2318/uspC	(cc=0.3815)	info on Rv2318/uspC

Correlation of Rv0943c/- with Rv3735/-

Normalized LFCs for Rv0943c/-:
(description and provenance of datasets)

	Rv0943c/-	Rv3735/-
Fe_supp_jason_reseq	-0.636	-0.748
low_pH_jason_reseq	0.283	0.417
NO_jason_reseq	-0.058	-1.415
B6_jason_reseq	-0.556	-1.937
MHCII_jason_reseq	-0.54	-1.524
Isoniazid02	1.331	-0.057
Rifampicin4	0.69	0.474
Ethambutol3	0.67	0.153
Meropenem3	0.2	0.406
Vancomycin16	0.703	0.265
Rv2680_day32	-1.037	-0.947
H37Rv_KO_MarP	0.195	0.323
hypoxia_3wks	-0.116	0.104
hypoxia_6wks	0.117	0.541
glycerol	-0.328	1.134
cholesterol	0.236	-0.252
AJ	-0.015	0.41
Bibs02	0.625	-0.701
Bibs02c	-0.246	-1.502
BL6	0.304	0.977
BL6a	-0.013	-0.583
BXD01	0.098	0.775
BXD010	0.332	1.185
BXD011	0.854	0.734
BXD03	0.519	0.627
BXD04	0.345	2.103
BXD05	0.473	0.185
BXD06	0.611	0.405
BXD07	0.386	0.318
BXD08	1.259	0.712
BXD09	0.089	0.286
CAST	-0.652	-1.081
CCcont	0.158	1.038
DS01	0.719	-0.465
DS02	0.203	-0.833
DS04	-1.057	-0.835
DS0c	0.042	-1.884
GP01	-0.215	-0.722
GP02	0.371	0.988
GP0c	-0.653	-0.763
NOD	-0.199	0.947
NZO	0.09	0.341
PWK	-0.607	-0.013
H37Rv_KO_CtpC	0.265	0.635
H37Rv_KO_CtpD	0.0	-1.138
H37Rv_KO_Rv1272	-0.474	0.508
H37Rv_KO_SugABC	-1.462	-1.429
H37Rv_KO_MbtN	-0.72	-0.172
Trans05	0.205	0.578
macrophage_unactivated	-0.095	0.537
IL1	0.569	-0.664
Rapamycin	0.282	0.163
Tcell	-0.072	0.202
GMCSF	-0.343	-0.246
IFNab	0.088	-0.774
IFNg	0.564	-0.406
IFNg_GMCSF1	0.091	-1.42
Rv1432_day32	-0.28	0.176
Rv1565c_day32	-0.104	0.366
secA2_input	-0.412	0.297
delta_Rv3594	0.0	-0.19
delta_Rv3717	-0.454	0.496
delta_Rv3811	-0.537	-0.747
delta_Rv0954	-0.395	-0.247
PonA1	0.519	0.864
EccD1_KO	0.612	0.303
EspI_KO	-0.071	-0.804
PE35_KO	0.143	0.096
PPE68_KO	0.157	1.062
glycerol2	-0.115	0.137
lignocerate	0.485	-0.029
oleate	0.302	0.306
phosphatidylcholine	0.325	0.214
acetate	0.482	-0.374
glucAc	0.21	-0.665
Rv0950ko	1.107	1.475
Rv1096ko	0.832	0.639
Rv3684ko	1.297	-0.111
delta_otsA_trehalose	-0.766	-0.164