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 Rv1962c/vapC35

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

	Rv2827c/-	Rv1962c/vapC35
Fe_supp_jason_reseq	0.0	0.423
low_pH_jason_reseq	0.0	-1.225
NO_jason_reseq	0.0	0.074
B6_jason_reseq	0.0	-0.641
MHCII_jason_reseq	0.0	0.443
Isoniazid02	-0.183	-2.209
Rifampicin4	-0.712	-1.346
Ethambutol3	-0.153	-1.308
Meropenem3	-0.315	-1.945
Vancomycin16	-0.334	-1.374
Rv2680_day32	0.0	0.094
H37Rv_KO_MarP	-0.491	-0.013
hypoxia_3wks	0.0	-0.59
hypoxia_6wks	0.0	-0.89
glycerol	0.0	-0.056
cholesterol	0.0	-0.091
AJ	0.0	-0.771
Bibs02	0.0	0.012
Bibs02c	0.0	-0.239
BL6	0.0	-1.031
BL6a	0.0	-0.534
BXD01	0.0	-0.409
BXD010	0.0	0.059
BXD011	0.0	-0.791
BXD03	0.0	-0.697
BXD04	0.0	-0.584
BXD05	0.0	-0.525
BXD06	0.0	-0.547
BXD07	0.0	-1.08
BXD08	0.0	-0.055
BXD09	0.0	-0.789
CAST	0.0	-1.063
CCcont	0.0	-0.497
DS01	0.0	-0.217
DS02	0.0	-0.51
DS04	0.0	-0.876
DS0c	0.0	0.277
GP01	0.0	0.161
GP02	0.0	-0.791
GP0c	0.0	-0.385
NOD	0.0	0.34
NZO	0.0	0.471
PWK	0.0	0.027
H37Rv_KO_CtpC	0.162	-0.618
H37Rv_KO_CtpD	0.0	-0.918
H37Rv_KO_Rv1272	0.0	0.559
H37Rv_KO_SugABC	0.0	0.493
H37Rv_KO_MbtN	0.0	0.981
Trans05	0.0	0.436
macrophage_unactivated	0.0	-0.193
IL1	0.0	-0.368
Rapamycin	0.0	0.267
Tcell	0.0	0.094
GMCSF	0.0	0.547
IFNab	0.0	0.0
IFNg	0.0	-0.374
IFNg_GMCSF1	0.0	-0.192
Rv1432_day32	-0.494	-0.986
Rv1565c_day32	0.0	-0.218
secA2_input	1.234	-0.188
delta_Rv3594	0.58	0.567
delta_Rv3717	0.0	0.784
delta_Rv3811	0.205	0.471
delta_Rv0954	0.756	0.142
PonA1	0.437	-0.241
EccD1_KO	1.595	0.779
EspI_KO	0.394	0.55
PE35_KO	0.767	0.058
PPE68_KO	0.841	0.256
glycerol2	0.0	-0.35
lignocerate	0.0	-0.985
oleate	0.0	0.332
phosphatidylcholine	0.0	-0.511
acetate	0.0	0.585
glucAc	0.0	-0.649
Rv0950ko	-0.38	-0.941
Rv1096ko	0.0	-1.243
Rv3684ko	-0.413	-0.684
delta_otsA_trehalose	-2.961	-2.886