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 Rv3884c/eccA2:

update plot	correlation	link to info on gene
Rv2512c/-	(cc=0.5705)	info on Rv2512c/-
Rv2479c/-	(cc=0.5496)	info on Rv2479c/-
Rv2816c/-	(cc=0.5417)	info on Rv2816c/-
Rv3407/vapB47	(cc=0.5374)	info on Rv3407/vapB47
Rv1764/-	(cc=0.5371)	info on Rv1764/-
Rv3380c/-	(cc=0.5333)	info on Rv3380c/-
Rv3018c/PPE46	(cc=0.5317)	info on Rv3018c/PPE46
Rv0755c/PPE12	(cc=0.5276)	info on Rv0755c/PPE12
Rv2167c/-	(cc=0.5267)	info on Rv2167c/-
Rv2106/-	(cc=0.5251)	info on Rv2106/-

Correlation of Rv3884c/eccA2 with Rv0755c/PPE12

Normalized LFCs for Rv3884c/eccA2:
(description and provenance of datasets)

	Rv3884c/eccA2	Rv0755c/PPE12
Fe_supp_jason_reseq	-0.377	-0.553
low_pH_jason_reseq	-0.718	-0.634
NO_jason_reseq	-0.845	-0.179
B6_jason_reseq	0.201	-0.128
MHCII_jason_reseq	0.406	1.052
Isoniazid02	-0.818	-0.316
Rifampicin4	-0.095	-0.092
Ethambutol3	1.608	0.585
Meropenem3	-0.131	-0.307
Vancomycin16	-0.39	0.34
Rv2680_day32	0.152	-0.516
H37Rv_KO_MarP	0.222	0.628
hypoxia_3wks	0.0	-0.104
hypoxia_6wks	-0.409	-0.34
glycerol	0.601	0.353
cholesterol	0.315	-0.482
AJ	0.845	0.785
Bibs02	0.18	0.832
Bibs02c	0.374	1.028
BL6	0.136	-0.518
BL6a	0.373	0.528
BXD01	0.354	0.207
BXD010	0.241	0.879
BXD011	0.401	1.712
BXD03	0.367	0.075
BXD04	0.845	-0.176
BXD05	1.05	0.491
BXD06	0.581	0.025
BXD07	0.207	0.052
BXD08	-0.128	-0.189
BXD09	0.292	-0.14
CAST	0.434	0.402
CCcont	0.507	0.083
DS01	0.33	0.799
DS02	0.0	1.068
DS04	0.347	0.682
DS0c	0.121	0.933
GP01	0.118	-0.66
GP02	0.756	-0.299
GP0c	-0.263	-0.654
NOD	0.402	0.76
NZO	0.09	0.858
PWK	0.313	0.689
H37Rv_KO_CtpC	0.707	1.014
H37Rv_KO_CtpD	-0.06	1.246
H37Rv_KO_Rv1272	0.016	0.417
H37Rv_KO_SugABC	1.163	-0.078
H37Rv_KO_MbtN	0.184	-0.081
Trans05	0.308	0.29
macrophage_unactivated	-0.514	-0.915
IL1	-0.89	-0.24
Rapamycin	-1.221	-1.194
Tcell	-0.349	-0.355
GMCSF	-0.137	-0.681
IFNab	-0.907	-1.611
IFNg	-0.553	-0.861
IFNg_GMCSF1	-1.471	-0.811
Rv1432_day32	-1.159	-0.206
Rv1565c_day32	-0.319	-0.486
secA2_input	-0.409	-0.65
delta_Rv3594	-0.563	0.038
delta_Rv3717	-0.191	-0.886
delta_Rv3811	0.088	-0.507
delta_Rv0954	-0.048	0.096
PonA1	0.209	-0.719
EccD1_KO	0.398	0.444
EspI_KO	0.163	0.935
PE35_KO	0.627	0.318
PPE68_KO	0.554	0.432
glycerol2	0.343	0.347
lignocerate	0.058	0.347
oleate	0.164	-0.065
phosphatidylcholine	0.179	0.643
acetate	-0.233	0.181
glucAc	0.295	-0.024
Rv0950ko	0.0	0.223
Rv1096ko	-0.434	-0.483
Rv3684ko	-0.848	-0.085
delta_otsA_trehalose	-0.485	0.345