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 Rv1362c/-

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

	Rv3505/fadE27	Rv1362c/-
Fe_supp_jason_reseq	-0.939	0.167
low_pH_jason_reseq	-0.661	-0.726
NO_jason_reseq	0.898	0.142
B6_jason_reseq	-0.468	-0.81
MHCII_jason_reseq	0.885	-0.066
Isoniazid02	0.383	0.162
Rifampicin4	-0.149	-0.141
Ethambutol3	-0.235	1.469
Meropenem3	-0.386	-0.062
Vancomycin16	0.321	0.164
Rv2680_day32	-1.293	0.58
H37Rv_KO_MarP	-0.188	0.244
hypoxia_3wks	0.538	0.486
hypoxia_6wks	0.192	0.528
glycerol	-0.762	0.426
cholesterol	-0.835	0.353
AJ	0.108	0.602
Bibs02	1.094	0.126
Bibs02c	1.325	0.559
BL6	0.3	0.992
BL6a	1.403	0.65
BXD01	-0.552	0.658
BXD010	0.444	0.966
BXD011	0.631	1.5
BXD03	-0.421	0.587
BXD04	1.208	0.176
BXD05	0.042	0.411
BXD06	0.607	0.542
BXD07	0.4	0.233
BXD08	0.352	0.514
BXD09	0.208	0.296
CAST	-0.354	-0.023
CCcont	0.432	0.726
DS01	0.737	-0.85
DS02	-1.027	-0.751
DS04	0.465	0.472
DS0c	0.068	-0.184
GP01	-1.134	0.192
GP02	0.379	0.739
GP0c	-0.521	-0.026
NOD	-0.848	-0.841
NZO	0.503	0.387
PWK	-1.131	0.445
H37Rv_KO_CtpC	0.671	0.368
H37Rv_KO_CtpD	1.244	0.993
H37Rv_KO_Rv1272	-0.501	1.098
H37Rv_KO_SugABC	0.575	0.99
H37Rv_KO_MbtN	0.078	-0.582
Trans05	1.521	0.732
macrophage_unactivated	-1.086	0.338
IL1	0.258	0.866
Rapamycin	0.448	0.193
Tcell	-0.815	-0.186
GMCSF	1.325	0.502
IFNab	-0.079	0.296
IFNg	-0.668	-0.203
IFNg_GMCSF1	-0.163	0.415
Rv1432_day32	-0.42	-1.027
Rv1565c_day32	0.556	0.352
secA2_input	0.723	-0.041
delta_Rv3594	-0.607	-0.858
delta_Rv3717	-1.029	-1.19
delta_Rv3811	-0.674	-0.483
delta_Rv0954	-0.995	-0.647
PonA1	-0.355	-0.822
EccD1_KO	-0.51	-0.303
EspI_KO	-1.101	-0.103
PE35_KO	-0.131	0.694
PPE68_KO	0.362	0.538
glycerol2	-0.324	0.918
lignocerate	-0.066	0.838
oleate	0.0	0.753
phosphatidylcholine	-0.238	0.881
acetate	0.213	0.866
glucAc	0.49	0.842
Rv0950ko	-0.829	-0.169
Rv1096ko	-0.274	-1.071
Rv3684ko	-1.019	-1.706
delta_otsA_trehalose	0.422	-0.163