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 Rv3150/nuoF:

update plot	correlation	link to info on gene
Rv3146/nuoB	(cc=0.8695)	info on Rv3146/nuoB
Rv3152/nuoH	(cc=0.8676)	info on Rv3152/nuoH
Rv3153/nuoI	(cc=0.8414)	info on Rv3153/nuoI
Rv3148/nuoD	(cc=0.8182)	info on Rv3148/nuoD
Rv3151/nuoG	(cc=0.7969)	info on Rv3151/nuoG
Rv3145/nuoA	(cc=0.7635)	info on Rv3145/nuoA
Rv3158/nuoN	(cc=0.7516)	info on Rv3158/nuoN
Rv3156/nuoL	(cc=0.7338)	info on Rv3156/nuoL
Rv3818/-	(cc=0.6963)	info on Rv3818/-
Rv1059/-	(cc=0.6944)	info on Rv1059/-

Correlation of Rv3150/nuoF with Rv3151/nuoG

Normalized LFCs for Rv3150/nuoF:
(description and provenance of datasets)

	Rv3150/nuoF	Rv3151/nuoG
Fe_supp_jason_reseq	-1.514	0.426
low_pH_jason_reseq	-0.313	-1.051
NO_jason_reseq	-0.252	-0.669
B6_jason_reseq	-1.087	-0.932
MHCII_jason_reseq	-1.509	-1.019
Isoniazid02	0.611	0.524
Rifampicin4	0.282	0.872
Ethambutol3	-0.595	0.32
Meropenem3	-0.847	1.139
Vancomycin16	-0.196	0.186
Rv2680_day32	0.266	-0.219
H37Rv_KO_MarP	-0.246	-0.508
hypoxia_3wks	1.097	1.264
hypoxia_6wks	0.754	0.583
glycerol	-0.471	-0.338
cholesterol	-0.216	-0.116
AJ	-0.983	-0.496
Bibs02	0.55	-0.672
Bibs02c	-0.23	0.0
BL6	1.845	1.645
BL6a	2.251	1.972
BXD01	1.864	1.529
BXD010	2.266	2.019
BXD011	2.05	2.201
BXD03	2.177	2.395
BXD04	2.337	2.06
BXD05	2.126	2.121
BXD06	2.045	1.68
BXD07	2.3	2.058
BXD08	2.274	2.05
BXD09	2.374	2.023
CAST	0.506	-1.113
CCcont	1.451	1.082
DS01	0.583	0.26
DS02	0.147	1.004
DS04	0.426	1.619
DS0c	0.969	0.652
GP01	0.715	0.998
GP02	0.875	0.9
GP0c	1.092	0.429
NOD	-0.838	-1.228
NZO	0.38	-0.733
PWK	-0.142	0.216
H37Rv_KO_CtpC	1.463	0.488
H37Rv_KO_CtpD	2.661	1.28
H37Rv_KO_Rv1272	1.929	1.988
H37Rv_KO_SugABC	1.426	1.5
H37Rv_KO_MbtN	1.537	-0.127
Trans05	1.798	1.732
macrophage_unactivated	0.284	-0.685
IL1	0.267	0.427
Rapamycin	0.365	0.669
Tcell	0.746	-0.055
GMCSF	0.388	0.256
IFNab	1.69	0.871
IFNg	-0.302	0.045
IFNg_GMCSF1	0.145	0.402
Rv1432_day32	0.568	-0.387
Rv1565c_day32	-0.208	-0.313
secA2_input	-0.116	0.131
delta_Rv3594	0.392	0.333
delta_Rv3717	0.299	0.513
delta_Rv3811	0.094	-0.28
delta_Rv0954	-0.057	0.408
PonA1	-0.39	-0.217
EccD1_KO	-0.474	0.164
EspI_KO	-0.177	-0.707
PE35_KO	-0.467	0.146
PPE68_KO	0.0	0.0
glycerol2	1.866	1.794
lignocerate	-0.192	-0.477
oleate	2.076	2.112
phosphatidylcholine	-0.221	-0.427
acetate	-0.263	-0.369
glucAc	0.587	0.674
Rv0950ko	0.311	-0.681
Rv1096ko	0.639	0.434
Rv3684ko	0.098	-0.596
delta_otsA_trehalose	0.965	0.766