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 Rv0567/-:

update plot	correlation	link to info on gene
Rv0327c/cyp135A1	(cc=0.5657)	info on Rv0327c/cyp135A1
Rv0794c/-	(cc=0.5311)	info on Rv0794c/-
Rv3777/-	(cc=0.4983)	info on Rv3777/-
Rv2998/-	(cc=0.4873)	info on Rv2998/-
Rv0024/-	(cc=0.481)	info on Rv0024/-
Rv2424c/-	(cc=0.4761)	info on Rv2424c/-
Rv3325/-	(cc=0.4685)	info on Rv3325/-
Rv1200/-	(cc=0.4522)	info on Rv1200/-
Rv2644c/-	(cc=0.4498)	info on Rv2644c/-
Rv2915c/-	(cc=0.4485)	info on Rv2915c/-

Correlation of Rv0567/- with Rv2424c/-

Normalized LFCs for Rv0567/-:
(description and provenance of datasets)

	Rv0567/-	Rv2424c/-
Fe_supp_jason_reseq	0.18	-0.701
low_pH_jason_reseq	-0.55	-1.082
NO_jason_reseq	-0.347	0.349
B6_jason_reseq	0.591	0.996
MHCII_jason_reseq	0.752	-0.668
Isoniazid02	0.033	-0.18
Rifampicin4	0.295	0.875
Ethambutol3	0.338	0.573
Meropenem3	-0.272	0.659
Vancomycin16	-0.186	0.645
Rv2680_day32	-1.09	0.043
H37Rv_KO_MarP	0.19	0.676
hypoxia_3wks	0.662	-0.167
hypoxia_6wks	0.825	0.121
glycerol	-0.358	-1.287
cholesterol	-0.516	-0.457
AJ	0.182	0.913
Bibs02	0.629	-0.148
Bibs02c	0.306	0.196
BL6	0.187	0.455
BL6a	0.227	-0.29
BXD01	-0.481	-0.276
BXD010	0.384	-0.559
BXD011	0.374	-0.513
BXD03	0.128	-0.213
BXD04	0.293	0.063
BXD05	-0.224	-0.628
BXD06	0.142	-0.469
BXD07	0.017	-0.288
BXD08	-0.184	-0.209
BXD09	-0.043	-0.242
CAST	0.294	0.295
CCcont	-0.187	-1.203
DS01	-0.022	0.33
DS02	0.115	0.775
DS04	-0.7	0.864
DS0c	0.68	0.412
GP01	0.528	0.121
GP02	0.379	0.333
GP0c	-0.486	0.623
NOD	0.404	0.413
NZO	0.364	0.909
PWK	0.266	0.645
H37Rv_KO_CtpC	-0.777	-0.184
H37Rv_KO_CtpD	-0.575	-0.777
H37Rv_KO_Rv1272	-0.377	-0.222
H37Rv_KO_SugABC	-0.344	-0.344
H37Rv_KO_MbtN	-0.417	-1.569
Trans05	-0.094	1.084
macrophage_unactivated	0.057	-0.407
IL1	-0.558	-1.1
Rapamycin	-0.528	-0.93
Tcell	-0.059	-0.479
GMCSF	-0.246	0.098
IFNab	-0.475	-0.937
IFNg	-0.11	-0.69
IFNg_GMCSF1	-0.415	0.148
Rv1432_day32	0.169	-0.03
Rv1565c_day32	-0.368	0.215
secA2_input	-0.094	0.941
delta_Rv3594	-1.037	-0.72
delta_Rv3717	-0.708	-0.865
delta_Rv3811	-0.294	-0.769
delta_Rv0954	-0.227	-1.039
PonA1	-0.464	-0.256
EccD1_KO	1.039	2.559
EspI_KO	0.761	1.657
PE35_KO	0.741	1.173
PPE68_KO	0.854	1.654
glycerol2	0.406	0.184
lignocerate	0.744	0.183
oleate	-0.4	0.604
phosphatidylcholine	0.459	0.794
acetate	0.359	0.357
glucAc	0.423	-0.149
Rv0950ko	0.597	-0.069
Rv1096ko	0.338	-0.187
Rv3684ko	0.088	-0.334
delta_otsA_trehalose	-0.88	-0.098