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 Rv2512c/-

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

	Rv3884c/eccA2	Rv2512c/-
Fe_supp_jason_reseq	-0.377	-0.661
low_pH_jason_reseq	-0.718	-0.325
NO_jason_reseq	-0.845	-0.478
B6_jason_reseq	0.201	-0.327
MHCII_jason_reseq	0.406	-0.315
Isoniazid02	-0.818	-0.905
Rifampicin4	-0.095	0.536
Ethambutol3	1.608	-0.45
Meropenem3	-0.131	-0.153
Vancomycin16	-0.39	-0.533
Rv2680_day32	0.152	0.201
H37Rv_KO_MarP	0.222	-0.032
hypoxia_3wks	0.0	0.104
hypoxia_6wks	-0.409	-0.349
glycerol	0.601	0.37
cholesterol	0.315	-0.189
AJ	0.845	0.913
Bibs02	0.18	1.052
Bibs02c	0.374	1.346
BL6	0.136	-0.057
BL6a	0.373	0.839
BXD01	0.354	0.42
BXD010	0.241	0.392
BXD011	0.401	0.221
BXD03	0.367	0.285
BXD04	0.845	0.551
BXD05	1.05	0.906
BXD06	0.581	0.293
BXD07	0.207	0.627
BXD08	-0.128	0.1
BXD09	0.292	0.383
CAST	0.434	0.781
CCcont	0.507	0.081
DS01	0.33	0.838
DS02	0.0	1.108
DS04	0.347	0.906
DS0c	0.121	0.998
GP01	0.118	0.235
GP02	0.756	0.262
GP0c	-0.263	0.138
NOD	0.402	0.724
NZO	0.09	0.561
PWK	0.313	0.568
H37Rv_KO_CtpC	0.707	0.965
H37Rv_KO_CtpD	-0.06	0.345
H37Rv_KO_Rv1272	0.016	0.669
H37Rv_KO_SugABC	1.163	0.875
H37Rv_KO_MbtN	0.184	0.129
Trans05	0.308	0.925
macrophage_unactivated	-0.514	-0.076
IL1	-0.89	-0.377
Rapamycin	-1.221	-0.727
Tcell	-0.349	-1.639
GMCSF	-0.137	-0.37
IFNab	-0.907	-0.846
IFNg	-0.553	-0.633
IFNg_GMCSF1	-1.471	-0.698
Rv1432_day32	-1.159	-0.452
Rv1565c_day32	-0.319	-0.455
secA2_input	-0.409	-0.346
delta_Rv3594	-0.563	0.0
delta_Rv3717	-0.191	-0.081
delta_Rv3811	0.088	0.162
delta_Rv0954	-0.048	-0.118
PonA1	0.209	-0.851
EccD1_KO	0.398	0.441
EspI_KO	0.163	0.525
PE35_KO	0.627	1.202
PPE68_KO	0.554	1.075
glycerol2	0.343	-0.929
lignocerate	0.058	-0.435
oleate	0.164	-1.026
phosphatidylcholine	0.179	-0.641
acetate	-0.233	1.069
glucAc	0.295	0.264
Rv0950ko	0.0	-0.033
Rv1096ko	-0.434	-0.944
Rv3684ko	-0.848	-1.215
delta_otsA_trehalose	-0.485	-1.117