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 Rv2594c/ruvC:

update plot	correlation	link to info on gene
Rv3139/fadE24	(cc=0.6078)	info on Rv3139/fadE24
Rv3577/-	(cc=0.5449)	info on Rv3577/-
Rv2516c/-	(cc=0.518)	info on Rv2516c/-
Rv0436c/pssA	(cc=0.5065)	info on Rv0436c/pssA
Rv0437c/psd	(cc=0.4974)	info on Rv0437c/psd
Rv0551c/fadD8	(cc=0.4896)	info on Rv0551c/fadD8
Rv0143c/-	(cc=0.4891)	info on Rv0143c/-
Rv3742c/-	(cc=0.4885)	info on Rv3742c/-
Rv1068c/PE_PGRS20	(cc=0.4855)	info on Rv1068c/PE_PGRS20
Rv1347c/mbtK	(cc=0.481)	info on Rv1347c/mbtK

Correlation of Rv2594c/ruvC with Rv1068c/PE_PGRS20

Normalized LFCs for Rv2594c/ruvC:
(description and provenance of datasets)

	Rv2594c/ruvC	Rv1068c/PE_PGRS20
Fe_supp_jason_reseq	0.218	0.224
low_pH_jason_reseq	0.0	1.673
NO_jason_reseq	0.0	0.373
B6_jason_reseq	0.0	-0.557
MHCII_jason_reseq	0.0	-0.538
Isoniazid02	-0.351	-2.935
Rifampicin4	-1.026	-2.031
Ethambutol3	-0.461	-2.291
Meropenem3	-0.289	-2.096
Vancomycin16	-1.005	-1.929
Rv2680_day32	0.0	0.771
H37Rv_KO_MarP	0.0	-0.138
hypoxia_3wks	0.0	-0.175
hypoxia_6wks	0.0	0.113
glycerol	0.0	-0.042
cholesterol	0.0	-0.183
AJ	0.0	0.0
Bibs02	0.0	0.111
Bibs02c	0.0	0.1
BL6	0.0	-0.597
BL6a	0.0	0.185
BXD01	0.0	-0.124
BXD010	0.0	0.035
BXD011	0.0	-0.13
BXD03	0.0	0.073
BXD04	0.0	-0.461
BXD05	0.0	-0.349
BXD06	0.0	-0.395
BXD07	0.0	-0.41
BXD08	0.0	0.072
BXD09	0.0	-0.122
CAST	0.0	-0.619
CCcont	0.733	-0.322
DS01	0.0	0.265
DS02	0.0	0.337
DS04	0.0	0.229
DS0c	0.0	0.72
GP01	0.0	-0.55
GP02	0.0	0.637
GP0c	0.0	-0.906
NOD	0.0	-0.706
NZO	0.0	-0.347
PWK	0.0	-0.458
H37Rv_KO_CtpC	0.0	-0.379
H37Rv_KO_CtpD	0.0	0.44
H37Rv_KO_Rv1272	0.0	-0.167
H37Rv_KO_SugABC	0.0	-0.677
H37Rv_KO_MbtN	0.0	0.022
Trans05	0.0	-0.305
macrophage_unactivated	0.0	-0.881
IL1	0.0	-1.332
Rapamycin	0.0	-0.601
Tcell	0.0	-1.033
GMCSF	0.0	0.182
IFNab	0.0	-1.4
IFNg	0.0	-0.617
IFNg_GMCSF1	0.0	0.28
Rv1432_day32	0.0	0.312
Rv1565c_day32	0.0	0.588
secA2_input	0.412	-0.59
delta_Rv3594	0.211	0.647
delta_Rv3717	0.0	0.223
delta_Rv3811	0.0	0.57
delta_Rv0954	0.99	0.615
PonA1	0.304	0.667
EccD1_KO	0.0	-0.434
EspI_KO	-0.394	0.371
PE35_KO	0.703	0.505
PPE68_KO	0.0	0.33
glycerol2	0.0	-0.886
lignocerate	0.0	-0.838
oleate	0.0	-1.272
phosphatidylcholine	0.0	-1.13
acetate	0.63	0.047
glucAc	0.0	0.106
Rv0950ko	0.38	-0.748
Rv1096ko	0.38	-0.579
Rv3684ko	0.789	-1.002
delta_otsA_trehalose	1.482	1.865