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 Rv3741c/-

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

	Rv0943c/-	Rv3741c/-
Fe_supp_jason_reseq	-0.636	0.341
low_pH_jason_reseq	0.283	-0.241
NO_jason_reseq	-0.058	-0.801
B6_jason_reseq	-0.556	0.089
MHCII_jason_reseq	-0.54	-0.455
Isoniazid02	1.331	0.079
Rifampicin4	0.69	0.092
Ethambutol3	0.67	1.434
Meropenem3	0.2	-0.05
Vancomycin16	0.703	0.196
Rv2680_day32	-1.037	0.399
H37Rv_KO_MarP	0.195	0.114
hypoxia_3wks	-0.116	-0.439
hypoxia_6wks	0.117	0.301
glycerol	-0.328	-0.407
cholesterol	0.236	0.039
AJ	-0.015	-0.113
Bibs02	0.625	-0.592
Bibs02c	-0.246	-0.696
BL6	0.304	0.025
BL6a	-0.013	-0.027
BXD01	0.098	-0.169
BXD010	0.332	-0.475
BXD011	0.854	0.018
BXD03	0.519	-0.228
BXD04	0.345	0.364
BXD05	0.473	0.483
BXD06	0.611	-0.037
BXD07	0.386	0.4
BXD08	1.259	-0.018
BXD09	0.089	0.324
CAST	-0.652	-0.445
CCcont	0.158	0.303
DS01	0.719	0.505
DS02	0.203	0.03
DS04	-1.057	-0.164
DS0c	0.042	-0.509
GP01	-0.215	-0.973
GP02	0.371	-0.626
GP0c	-0.653	-0.942
NOD	-0.199	-0.967
NZO	0.09	-1.263
PWK	-0.607	-1.475
H37Rv_KO_CtpC	0.265	0.011
H37Rv_KO_CtpD	0.0	-0.107
H37Rv_KO_Rv1272	-0.474	-1.813
H37Rv_KO_SugABC	-1.462	-0.184
H37Rv_KO_MbtN	-0.72	0.232
Trans05	0.205	-0.536
macrophage_unactivated	-0.095	-0.076
IL1	0.569	0.184
Rapamycin	0.282	0.675
Tcell	-0.072	-0.026
GMCSF	-0.343	-0.127
IFNab	0.088	0.478
IFNg	0.564	-0.521
IFNg_GMCSF1	0.091	0.05
Rv1432_day32	-0.28	0.872
Rv1565c_day32	-0.104	-0.362
secA2_input	-0.412	0.302
delta_Rv3594	0.0	-2.14
delta_Rv3717	-0.454	-1.552
delta_Rv3811	-0.537	-0.669
delta_Rv0954	-0.395	-1.243
PonA1	0.519	-0.21
EccD1_KO	0.612	1.006
EspI_KO	-0.071	0.707
PE35_KO	0.143	0.117
PPE68_KO	0.157	0.339
glycerol2	-0.115	0.39
lignocerate	0.485	0.553
oleate	0.302	0.323
phosphatidylcholine	0.325	0.147
acetate	0.482	0.407
glucAc	0.21	0.021
Rv0950ko	1.107	1.273
Rv1096ko	0.832	0.492
Rv3684ko	1.297	1.601
delta_otsA_trehalose	-0.766	-0.527