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 Rv3505/fadE27:

update plot	correlation	link to info on gene
Rv3152/nuoH	(cc=0.4212)	info on Rv3152/nuoH
Rv0755A/-	(cc=0.4163)	info on Rv0755A/-
Rv1362c/-	(cc=0.4051)	info on Rv1362c/-
Rv3382c/lytB1	(cc=0.3987)	info on Rv3382c/lytB1
Rv0052/-	(cc=0.3866)	info on Rv0052/-
Rv1021/-	(cc=0.3832)	info on Rv1021/-
Rv0799c/-	(cc=0.3697)	info on Rv0799c/-
Rv0459/-	(cc=0.3641)	info on Rv0459/-
Rv2548/vapC19	(cc=0.364)	info on Rv2548/vapC19
Rv3150/nuoF	(cc=0.3634)	info on Rv3150/nuoF

Correlation of Rv3505/fadE27 with Rv3152/nuoH

Normalized LFCs for Rv3505/fadE27:
(description and provenance of datasets)

	Rv3505/fadE27	Rv3152/nuoH
Fe_supp_jason_reseq	-0.939	-0.772
low_pH_jason_reseq	-0.661	-0.092
NO_jason_reseq	0.898	-0.144
B6_jason_reseq	-0.468	-0.801
MHCII_jason_reseq	0.885	-2.143
Isoniazid02	0.383	0.444
Rifampicin4	-0.149	0.774
Ethambutol3	-0.235	0.069
Meropenem3	-0.386	-0.659
Vancomycin16	0.321	-0.225
Rv2680_day32	-1.293	-0.082
H37Rv_KO_MarP	-0.188	-0.697
hypoxia_3wks	0.538	1.009
hypoxia_6wks	0.192	0.979
glycerol	-0.762	-0.992
cholesterol	-0.835	-0.54
AJ	0.108	0.232
Bibs02	1.094	1.123
Bibs02c	1.325	1.375
BL6	0.3	2.337
BL6a	1.403	2.946
BXD01	-0.552	2.231
BXD010	0.444	2.447
BXD011	0.631	2.768
BXD03	-0.421	2.634
BXD04	1.208	2.663
BXD05	0.042	2.747
BXD06	0.607	2.529
BXD07	0.4	2.629
BXD08	0.352	2.704
BXD09	0.208	2.869
CAST	-0.354	0.117
CCcont	0.432	1.606
DS01	0.737	1.16
DS02	-1.027	1.367
DS04	0.465	1.528
DS0c	0.068	1.838
GP01	-1.134	0.29
GP02	0.379	0.696
GP0c	-0.521	1.218
NOD	-0.848	-0.06
NZO	0.503	0.465
PWK	-1.131	-0.659
H37Rv_KO_CtpC	0.671	1.156
H37Rv_KO_CtpD	1.244	2.183
H37Rv_KO_Rv1272	-0.501	2.115
H37Rv_KO_SugABC	0.575	2.463
H37Rv_KO_MbtN	0.078	1.452
Trans05	1.521	2.198
macrophage_unactivated	-1.086	-0.205
IL1	0.258	-0.641
Rapamycin	0.448	-0.381
Tcell	-0.815	0.261
GMCSF	1.325	0.256
IFNab	-0.079	0.472
IFNg	-0.668	0.024
IFNg_GMCSF1	-0.163	-0.295
Rv1432_day32	-0.42	-0.481
Rv1565c_day32	0.556	1.035
secA2_input	0.723	-0.382
delta_Rv3594	-0.607	0.361
delta_Rv3717	-1.029	0.695
delta_Rv3811	-0.674	0.25
delta_Rv0954	-0.995	0.695
PonA1	-0.355	0.254
EccD1_KO	-0.51	-0.125
EspI_KO	-1.101	0.106
PE35_KO	-0.131	0.0
PPE68_KO	0.362	0.643
glycerol2	-0.324	1.645
lignocerate	-0.066	-0.104
oleate	0.0	1.388
phosphatidylcholine	-0.238	-0.38
acetate	0.213	0.707
glucAc	0.49	1.157
Rv0950ko	-0.829	-0.217
Rv1096ko	-0.274	0.461
Rv3684ko	-1.019	-0.344
delta_otsA_trehalose	0.422	0.69