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 Rv2838c/rbfA

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

	Rv2827c/-	Rv2838c/rbfA
Fe_supp_jason_reseq	0.0	0.538
low_pH_jason_reseq	0.0	-0.167
NO_jason_reseq	0.0	0.244
B6_jason_reseq	0.0	-0.649
MHCII_jason_reseq	0.0	-0.572
Isoniazid02	-0.183	0.0
Rifampicin4	-0.712	0.653
Ethambutol3	-0.153	0.764
Meropenem3	-0.315	0.289
Vancomycin16	-0.334	0.0
Rv2680_day32	0.0	-0.554
H37Rv_KO_MarP	-0.491	-1.865
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.0
cholesterol	0.0	0.0
AJ	0.0	0.0
Bibs02	0.0	-0.183
Bibs02c	0.0	-0.209
BL6	0.0	-0.125
BL6a	0.0	-0.198
BXD01	0.0	-0.13
BXD010	0.0	-0.128
BXD011	0.0	0.116
BXD03	0.0	-0.135
BXD04	0.0	-0.124
BXD05	0.0	-0.135
BXD06	0.0	-0.133
BXD07	0.0	-0.138
BXD08	0.0	-0.133
BXD09	0.0	-0.14
CAST	0.0	-0.23
CCcont	0.0	0.0
DS01	0.0	-0.236
DS02	0.0	0.199
DS04	0.0	0.339
DS0c	0.0	-0.217
GP01	0.0	-0.099
GP02	0.0	-0.083
GP0c	0.0	-0.13
NOD	0.0	-0.225
NZO	0.0	-0.199
PWK	0.0	-0.196
H37Rv_KO_CtpC	0.162	-0.162
H37Rv_KO_CtpD	0.0	0.116
H37Rv_KO_Rv1272	0.0	-0.141
H37Rv_KO_SugABC	0.0	0.321
H37Rv_KO_MbtN	0.0	0.469
Trans05	0.0	-0.131
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	-0.494	-0.999
Rv1565c_day32	0.0	0.0
secA2_input	1.234	1.39
delta_Rv3594	0.58	2.14
delta_Rv3717	0.0	2.82
delta_Rv3811	0.205	2.421
delta_Rv0954	0.756	2.31
PonA1	0.437	0.145
EccD1_KO	1.595	3.2
EspI_KO	0.394	2.193
PE35_KO	0.767	-1.263
PPE68_KO	0.841	0.33
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	-0.38	0.844
Rv1096ko	0.0	-0.157
Rv3684ko	-0.413	-1.831
delta_otsA_trehalose	-2.961	-1.296