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 Rv3156/nuoL

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

	Rv3150/nuoF	Rv3156/nuoL
Fe_supp_jason_reseq	-1.514	-0.41
low_pH_jason_reseq	-0.313	-1.186
NO_jason_reseq	-0.252	0.0
B6_jason_reseq	-1.087	-0.787
MHCII_jason_reseq	-1.509	-0.544
Isoniazid02	0.611	-1.825
Rifampicin4	0.282	1.021
Ethambutol3	-0.595	-0.621
Meropenem3	-0.847	-0.673
Vancomycin16	-0.196	-0.223
Rv2680_day32	0.266	-0.524
H37Rv_KO_MarP	-0.246	-0.387
hypoxia_3wks	1.097	1.3
hypoxia_6wks	0.754	0.205
glycerol	-0.471	-0.234
cholesterol	-0.216	-0.898
AJ	-0.983	-0.269
Bibs02	0.55	0.873
Bibs02c	-0.23	1.105
BL6	1.845	1.47
BL6a	2.251	1.808
BXD01	1.864	1.047
BXD010	2.266	1.308
BXD011	2.05	1.707
BXD03	2.177	1.502
BXD04	2.337	0.693
BXD05	2.126	1.772
BXD06	2.045	1.533
BXD07	2.3	1.371
BXD08	2.274	1.052
BXD09	2.374	1.346
CAST	0.506	0.123
CCcont	1.451	0.861
DS01	0.583	1.169
DS02	0.147	1.453
DS04	0.426	1.703
DS0c	0.969	1.285
GP01	0.715	1.605
GP02	0.875	1.171
GP0c	1.092	1.551
NOD	-0.838	0.867
NZO	0.38	-0.055
PWK	-0.142	-0.29
H37Rv_KO_CtpC	1.463	1.177
H37Rv_KO_CtpD	2.661	2.074
H37Rv_KO_Rv1272	1.929	1.498
H37Rv_KO_SugABC	1.426	2.384
H37Rv_KO_MbtN	1.537	0.829
Trans05	1.798	1.208
macrophage_unactivated	0.284	-0.316
IL1	0.267	0.0
Rapamycin	0.365	-0.15
Tcell	0.746	-0.267
GMCSF	0.388	-0.309
IFNab	1.69	0.097
IFNg	-0.302	0.126
IFNg_GMCSF1	0.145	-0.314
Rv1432_day32	0.568	0.134
Rv1565c_day32	-0.208	-0.038
secA2_input	-0.116	-0.565
delta_Rv3594	0.392	0.087
delta_Rv3717	0.299	0.269
delta_Rv3811	0.094	-0.149
delta_Rv0954	-0.057	0.211
PonA1	-0.39	0.044
EccD1_KO	-0.474	-1.02
EspI_KO	-0.177	-0.884
PE35_KO	-0.467	-0.33
PPE68_KO	0.0	-0.118
glycerol2	1.866	1.914
lignocerate	-0.192	-0.852
oleate	2.076	2.375
phosphatidylcholine	-0.221	-0.744
acetate	-0.263	0.572
glucAc	0.587	0.163
Rv0950ko	0.311	0.422
Rv1096ko	0.639	0.636
Rv3684ko	0.098	0.537
delta_otsA_trehalose	0.965	1.21