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 Rv2827c/-:

update plot	correlation	link to info on gene
Rv1962c/vapC35	(cc=0.5568)	info on Rv1962c/vapC35
Rv2667/clpC2	(cc=0.5507)	info on Rv2667/clpC2
Rv0808/purF	(cc=0.5175)	info on Rv0808/purF
Rv2592c/ruvB	(cc=0.5108)	info on Rv2592c/ruvB
Rv2296/-	(cc=0.5051)	info on Rv2296/-
Rv2838c/rbfA	(cc=0.5033)	info on Rv2838c/rbfA
Rv2980/-	(cc=0.502)	info on Rv2980/-
Rv3488/-	(cc=0.4895)	info on Rv3488/-
Rv2359/zur	(cc=0.4791)	info on Rv2359/zur
Rv0411c/glnH	(cc=0.4543)	info on Rv0411c/glnH

Correlation of Rv2827c/- with Rv2296/-

Normalized LFCs for Rv2827c/-:
(description and provenance of datasets)

	Rv2827c/-	Rv2296/-
Fe_supp_jason_reseq	0.0	0.044
low_pH_jason_reseq	0.0	-0.146
NO_jason_reseq	0.0	0.192
B6_jason_reseq	0.0	-0.606
MHCII_jason_reseq	0.0	-0.186
Isoniazid02	-0.183	-0.017
Rifampicin4	-0.712	0.152
Ethambutol3	-0.153	0.058
Meropenem3	-0.315	-0.133
Vancomycin16	-0.334	-0.011
Rv2680_day32	0.0	0.351
H37Rv_KO_MarP	-0.491	-0.102
hypoxia_3wks	0.0	0.195
hypoxia_6wks	0.0	0.2
glycerol	0.0	0.0
cholesterol	0.0	-0.134
AJ	0.0	0.146
Bibs02	0.0	0.056
Bibs02c	0.0	0.199
BL6	0.0	-0.164
BL6a	0.0	0.0
BXD01	0.0	0.284
BXD010	0.0	0.005
BXD011	0.0	0.109
BXD03	0.0	-0.926
BXD04	0.0	-0.308
BXD05	0.0	0.659
BXD06	0.0	0.018
BXD07	0.0	0.069
BXD08	0.0	0.245
BXD09	0.0	-0.019
CAST	0.0	0.077
CCcont	0.0	-0.679
DS01	0.0	0.332
DS02	0.0	-0.496
DS04	0.0	-0.041
DS0c	0.0	0.707
GP01	0.0	-0.326
GP02	0.0	1.042
GP0c	0.0	0.061
NOD	0.0	0.709
NZO	0.0	-0.007
PWK	0.0	0.246
H37Rv_KO_CtpC	0.162	-0.194
H37Rv_KO_CtpD	0.0	0.131
H37Rv_KO_Rv1272	0.0	-0.322
H37Rv_KO_SugABC	0.0	0.325
H37Rv_KO_MbtN	0.0	-0.014
Trans05	0.0	-0.298
macrophage_unactivated	0.0	0.0
IL1	0.0	-0.528
Rapamycin	0.0	-0.074
Tcell	0.0	-0.371
GMCSF	0.0	-0.18
IFNab	0.0	-0.057
IFNg	0.0	0.283
IFNg_GMCSF1	0.0	-0.408
Rv1432_day32	-0.494	0.233
Rv1565c_day32	0.0	0.287
secA2_input	1.234	0.477
delta_Rv3594	0.58	0.902
delta_Rv3717	0.0	0.464
delta_Rv3811	0.205	0.857
delta_Rv0954	0.756	-0.045
PonA1	0.437	0.439
EccD1_KO	1.595	1.204
EspI_KO	0.394	0.73
PE35_KO	0.767	1.205
PPE68_KO	0.841	1.353
glycerol2	0.0	0.601
lignocerate	0.0	0.029
oleate	0.0	1.0
phosphatidylcholine	0.0	0.402
acetate	0.0	-0.289
glucAc	0.0	-0.705
Rv0950ko	-0.38	0.368
Rv1096ko	0.0	-0.299
Rv3684ko	-0.413	-0.373
delta_otsA_trehalose	-2.961	-1.025